feat: improve editor window UI + add transport mismatch warning (#613)

MCPForUnity/Editor/Clients/IMcpClientConfigurator.cs

@@ -17,6 +17,12 @@ namespace MCPForUnity.Editor.Clients
         /// <summary>Current status cached by the configurator.</summary>
         McpStatus Status { get; }
 
+        /// <summary>
+        /// The transport type the client is currently configured for.
+        /// Returns Unknown if the client is not configured or the transport cannot be determined.
+        /// </summary>
+        ConfiguredTransport ConfiguredTransport { get; }
+
         /// <summary>True if this client supports auto-configure.</summary>
         bool SupportsAutoConfigure { get; }
 

MCPForUnity/Editor/Clients/McpClientConfiguratorBase.cs

@@ -28,6 +28,7 @@ namespace MCPForUnity.Editor.Clients
         public string Id => client.name.Replace(" ", "").ToLowerInvariant();
         public virtual string DisplayName => client.name;
         public McpStatus Status => client.status;
+        public ConfiguredTransport ConfiguredTransport => client.configuredTransport;
         public virtual bool SupportsAutoConfigure => true;
         public virtual string GetConfigureActionLabel() => "Configure";
 
@@ -94,6 +95,7 @@ namespace MCPForUnity.Editor.Clients
                 if (!File.Exists(path))
                 {
                     client.SetStatus(McpStatus.NotConfigured);
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
                     return client.status;
                 }
 
@@ -135,6 +137,7 @@ namespace MCPForUnity.Editor.Clients
                     if (standardConfig?.mcpServers?.unityMCP != null)
                     {
                         args = standardConfig.mcpServers.unityMCP.args;
+                        configuredUrl = standardConfig.mcpServers.unityMCP.url;
                         configExists = true;
                     }
                 }
@@ -142,9 +145,24 @@ namespace MCPForUnity.Editor.Clients
                 if (!configExists)
                 {
                     client.SetStatus(McpStatus.MissingConfig);
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
                     return client.status;
                 }
 
+                // Determine and set the configured transport type
+                if (args != null && args.Length > 0)
+                {
+                    client.configuredTransport = Models.ConfiguredTransport.Stdio;
+                }
+                else if (!string.IsNullOrEmpty(configuredUrl))
+                {
+                    client.configuredTransport = Models.ConfiguredTransport.Http;
+                }
+                else
+                {
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
+                }
+
                 bool matches = false;
                 if (args != null && args.Length > 0)
                 {
@@ -171,6 +189,9 @@ namespace MCPForUnity.Editor.Clients
                     if (result == "Configured successfully")
                     {
                         client.SetStatus(McpStatus.Configured);
+                        // Update transport after rewrite based on current server setting
+                        bool useHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+                        client.configuredTransport = useHttp ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
                     }
                     else
                     {
@@ -185,6 +206,7 @@ namespace MCPForUnity.Editor.Clients
             catch (Exception ex)
             {
                 client.SetStatus(McpStatus.Error, ex.Message);
+                client.configuredTransport = Models.ConfiguredTransport.Unknown;
             }
 
             return client.status;
@@ -198,6 +220,9 @@ namespace MCPForUnity.Editor.Clients
             if (result == "Configured successfully")
             {
                 client.SetStatus(McpStatus.Configured);
+                // Set transport based on current server setting
+                bool useHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+                client.configuredTransport = useHttp ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
             }
             else
             {
@@ -237,12 +262,27 @@ namespace MCPForUnity.Editor.Clients
                 if (!File.Exists(path))
                 {
                     client.SetStatus(McpStatus.NotConfigured);
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
                     return client.status;
                 }
 
                 string toml = File.ReadAllText(path);
                 if (CodexConfigHelper.TryParseCodexServer(toml, out _, out var args, out var url))
                 {
+                    // Determine and set the configured transport type
+                    if (!string.IsNullOrEmpty(url))
+                    {
+                        client.configuredTransport = Models.ConfiguredTransport.Http;
+                    }
+                    else if (args != null && args.Length > 0)
+                    {
+                        client.configuredTransport = Models.ConfiguredTransport.Stdio;
+                    }
+                    else
+                    {
+                        client.configuredTransport = Models.ConfiguredTransport.Unknown;
+                    }
+
                     bool matches = false;
                     if (!string.IsNullOrEmpty(url))
                     {
@@ -262,6 +302,10 @@ namespace MCPForUnity.Editor.Clients
                         return client.status;
                     }
                 }
+                else
+                {
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
+                }
 
                 if (attemptAutoRewrite)
                 {
@@ -269,6 +313,9 @@ namespace MCPForUnity.Editor.Clients
                     if (result == "Configured successfully")
                     {
                         client.SetStatus(McpStatus.Configured);
+                        // Update transport after rewrite based on current server setting
+                        bool useHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+                        client.configuredTransport = useHttp ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
                     }
                     else
                     {
@@ -283,6 +330,7 @@ namespace MCPForUnity.Editor.Clients
             catch (Exception ex)
             {
                 client.SetStatus(McpStatus.Error, ex.Message);
+                client.configuredTransport = Models.ConfiguredTransport.Unknown;
             }
 
             return client.status;
@@ -296,6 +344,9 @@ namespace MCPForUnity.Editor.Clients
             if (result == "Configured successfully")
             {
                 client.SetStatus(McpStatus.Configured);
+                // Set transport based on current server setting
+                bool useHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+                client.configuredTransport = useHttp ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
             }
             else
             {
@@ -363,6 +414,7 @@ namespace MCPForUnity.Editor.Clients
                 if (string.IsNullOrEmpty(claudePath))
                 {
                     client.SetStatus(McpStatus.NotConfigured, "Claude CLI not found");
+                    client.configuredTransport = Models.ConfiguredTransport.Unknown;
                     return client.status;
                 }
 
@@ -415,6 +467,20 @@ namespace MCPForUnity.Editor.Clients
                             bool registeredWithHttp = getStdout.Contains("Type: http", StringComparison.OrdinalIgnoreCase);
                             bool registeredWithStdio = getStdout.Contains("Type: stdio", StringComparison.OrdinalIgnoreCase);
 
+                            // Set the configured transport based on what we detected
+                            if (registeredWithHttp)
+                            {
+                                client.configuredTransport = Models.ConfiguredTransport.Http;
+                            }
+                            else if (registeredWithStdio)
+                            {
+                                client.configuredTransport = Models.ConfiguredTransport.Stdio;
+                            }
+                            else
+                            {
+                                client.configuredTransport = Models.ConfiguredTransport.Unknown;
+                            }
+
                             // Check for transport mismatch
                             bool hasTransportMismatch = (currentUseHttp && registeredWithStdio) || (!currentUseHttp && registeredWithHttp);
 
@@ -479,10 +545,12 @@ namespace MCPForUnity.Editor.Clients
                 }
 
                 client.SetStatus(McpStatus.NotConfigured);
+                client.configuredTransport = Models.ConfiguredTransport.Unknown;
             }
             catch (Exception ex)
             {
                 client.SetStatus(McpStatus.Error, ex.Message);
+                client.configuredTransport = Models.ConfiguredTransport.Unknown;
             }
 
             return client.status;
@@ -558,6 +626,7 @@ namespace MCPForUnity.Editor.Clients
 
             McpLog.Info($"Successfully registered with Claude Code using {(useHttpTransport ? "HTTP" : "stdio")} transport.");
             client.SetStatus(McpStatus.Configured);
+            client.configuredTransport = useHttpTransport ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
         }
 
         /// <summary>
@@ -577,6 +646,7 @@ namespace MCPForUnity.Editor.Clients
 
             McpLog.Info("MCP server successfully unregistered from Claude Code.");
             client.SetStatus(McpStatus.NotConfigured);
+            client.configuredTransport = Models.ConfiguredTransport.Unknown;
         }
 
         private void Register()
@@ -645,6 +715,7 @@ namespace MCPForUnity.Editor.Clients
             // Set status to Configured immediately after successful registration
             // The UI will trigger an async verification check separately to avoid blocking
             client.SetStatus(McpStatus.Configured);
+            client.configuredTransport = useHttpTransport ? Models.ConfiguredTransport.Http : Models.ConfiguredTransport.Stdio;
         }
 
         private void Unregister()
@@ -675,6 +746,7 @@ namespace MCPForUnity.Editor.Clients
 
             McpLog.Info("MCP server successfully unregistered from Claude Code.");
             client.SetStatus(McpStatus.NotConfigured);
+            client.configuredTransport = Models.ConfiguredTransport.Unknown;
         }
 
         public override string GetManualSnippet()

MCPForUnity/Editor/Constants/HealthStatus.cs

@@ -0,0 +1,14 @@
+namespace MCPForUnity.Editor.Constants
+{
+    /// <summary>
+    /// Constants for health check status values.
+    /// Used for coordinating health state between Connection and Advanced sections.
+    /// </summary>
+    public static class HealthStatus
+    {
+        public const string Unknown = "Unknown";
+        public const string Healthy = "Healthy";
+        public const string PingFailed = "Ping Failed";
+        public const string Unhealthy = "Unhealthy";
+    }
+}

MCPForUnity/Editor/Constants/HealthStatus.cs.meta

@@ -1,5 +1,5 @@
 fileFormatVersion: 2
-guid: b945a3de2cb2683448d686c0f3174faa
+guid: c15ed2426f43860479f1b8a99a343d16
 MonoImporter:
   externalObjects: {}
   serializedVersion: 2

MCPForUnity/Editor/Helpers/GameObjectLookup.cs

@@ -69,7 +69,9 @@ namespace MCPForUnity.Editor.Helpers
         /// </summary>
         public static GameObject FindById(int instanceId)
         {
+#pragma warning disable CS0618 // Type or member is obsolete
             return EditorUtility.InstanceIDToObject(instanceId) as GameObject;
+#pragma warning restore CS0618
         }
 
         /// <summary>
@@ -103,7 +105,9 @@ namespace MCPForUnity.Editor.Helpers
                 case SearchMethod.ById:
                     if (int.TryParse(searchTerm, out int instanceId))
                     {
+#pragma warning disable CS0618 // Type or member is obsolete
                         var obj = EditorUtility.InstanceIDToObject(instanceId) as GameObject;
+#pragma warning restore CS0618
                         if (obj != null && (includeInactive || obj.activeInHierarchy))
                         {
                             results.Add(instanceId);

MCPForUnity/Editor/Models/MCPConfigServer.cs

@@ -15,5 +15,9 @@ namespace MCPForUnity.Editor.Models
         // VSCode expects a transport type; include only when explicitly set
         [JsonProperty("type", NullValueHandling = NullValueHandling.Ignore)]
         public string type;
+
+        // URL for HTTP transport mode
+        [JsonProperty("url", NullValueHandling = NullValueHandling.Ignore)]
+        public string url;
     }
 }

MCPForUnity/Editor/Models/McpClient.cs

@@ -10,6 +10,7 @@ namespace MCPForUnity.Editor.Models
         public string linuxConfigPath;
         public string configStatus;
         public McpStatus status = McpStatus.NotConfigured;
+        public ConfiguredTransport configuredTransport = ConfiguredTransport.Unknown;
 
         // Capability flags/config for JSON-based configurators
         public bool IsVsCodeLayout; // Whether the config file follows VS Code layout (env object at root)

MCPForUnity/Editor/Models/McpStatus.cs

@@ -14,5 +14,16 @@ namespace MCPForUnity.Editor.Models
         UnsupportedOS, // OS is not supported
         Error, // General error state
     }
+
+    /// <summary>
+    /// Represents the transport type a client is configured to use.
+    /// Used to detect mismatches between server and client transport settings.
+    /// </summary>
+    public enum ConfiguredTransport
+    {
+        Unknown, // Could not determine transport type
+        Stdio,   // Client configured for stdio transport
+        Http     // Client configured for HTTP transport
+    }
 }
 

MCPForUnity/Editor/Windows/Components/Advanced.meta

@@ -1,5 +1,5 @@
 fileFormatVersion: 2
-guid: 3e753cf64be77814d8074be7a9451338
+guid: 7723ed5eaaccb104e93acb9fd2d8cd32
 folderAsset: yes
 DefaultImporter:
   externalObjects: {}

MCPForUnity/Editor/Windows/Components/Advanced/McpAdvancedSection.cs

@@ -5,24 +5,18 @@ using MCPForUnity.Editor.Constants;
 using MCPForUnity.Editor.Helpers;
 using MCPForUnity.Editor.Services;
 using UnityEditor;
-using UnityEditor.UIElements;
 using UnityEngine;
 using UnityEngine.UIElements;
 
-namespace MCPForUnity.Editor.Windows.Components.Settings
+namespace MCPForUnity.Editor.Windows.Components.Advanced
 {
     /// <summary>
-    /// Controller for the Settings section of the MCP For Unity editor window.
-    /// Handles version display, debug logs, validation level, and advanced path overrides.
+    /// Controller for the Advanced Settings section.
+    /// Handles path overrides, server source configuration, dev mode, and package deployment.
     /// </summary>
-    public class McpSettingsSection
+    public class McpAdvancedSection
     {
         // UI Elements
-        private Label versionLabel;
-        private Toggle debugLogsToggle;
-        private EnumField validationLevelField;
-        private Label validationDescription;
-        private Foldout advancedSettingsFoldout;
         private TextField uvxPathOverride;
         private Button browseUvxButton;
         private Button clearUvxButton;
@@ -30,6 +24,7 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
         private TextField gitUrlOverride;
         private Button browseGitUrlButton;
         private Button clearGitUrlButton;
+        private Toggle debugLogsToggle;
         private Toggle devModeForceRefreshToggle;
         private TextField deploySourcePath;
         private Button browseDeploySourceButton;
@@ -39,26 +34,18 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
         private Label deployTargetLabel;
         private Label deployBackupLabel;
         private Label deployStatusLabel;
-
-        // Data
-        private ValidationLevel currentValidationLevel = ValidationLevel.Standard;
+        private VisualElement healthIndicator;
+        private Label healthStatus;
+        private Button testConnectionButton;
 
         // Events
         public event Action OnGitUrlChanged;
         public event Action OnHttpServerCommandUpdateRequested;
-
-        // Validation levels
-        private enum ValidationLevel
-        {
-            Basic,
-            Standard,
-            Comprehensive,
-            Strict
-        }
+        public event Action OnTestConnectionRequested;
 
         public VisualElement Root { get; private set; }
 
-        public McpSettingsSection(VisualElement root)
+        public McpAdvancedSection(VisualElement root)
         {
             Root = root;
             CacheUIElements();
@@ -68,11 +55,6 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
 
         private void CacheUIElements()
         {
-            versionLabel = Root.Q<Label>("version-label");
-            debugLogsToggle = Root.Q<Toggle>("debug-logs-toggle");
-            validationLevelField = Root.Q<EnumField>("validation-level");
-            validationDescription = Root.Q<Label>("validation-description");
-            advancedSettingsFoldout = Root.Q<Foldout>("advanced-settings-foldout");
             uvxPathOverride = Root.Q<TextField>("uv-path-override");
             browseUvxButton = Root.Q<Button>("browse-uv-button");
             clearUvxButton = Root.Q<Button>("clear-uv-button");
@@ -80,6 +62,7 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
             gitUrlOverride = Root.Q<TextField>("git-url-override");
             browseGitUrlButton = Root.Q<Button>("browse-git-url-button");
             clearGitUrlButton = Root.Q<Button>("clear-git-url-button");
+            debugLogsToggle = Root.Q<Toggle>("debug-logs-toggle");
             devModeForceRefreshToggle = Root.Q<Toggle>("dev-mode-force-refresh-toggle");
             deploySourcePath = Root.Q<TextField>("deploy-source-path");
             browseDeploySourceButton = Root.Q<Button>("browse-deploy-source-button");
@@ -89,46 +72,70 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
             deployTargetLabel = Root.Q<Label>("deploy-target-label");
             deployBackupLabel = Root.Q<Label>("deploy-backup-label");
             deployStatusLabel = Root.Q<Label>("deploy-status-label");
+            healthIndicator = Root.Q<VisualElement>("health-indicator");
+            healthStatus = Root.Q<Label>("health-status");
+            testConnectionButton = Root.Q<Button>("test-connection-button");
         }
 
         private void InitializeUI()
         {
-            UpdateVersionLabel();
+            // Set tooltips for fields
+            if (uvxPathOverride != null)
+                uvxPathOverride.tooltip = "Override path to uvx executable. Leave empty for auto-detection.";
+            if (gitUrlOverride != null)
+                gitUrlOverride.tooltip = "Override server source for uvx --from. Leave empty to use default PyPI package. Example local dev: /path/to/unity-mcp/Server";
+            if (debugLogsToggle != null)
+            {
+                debugLogsToggle.tooltip = "Enable verbose debug logging to the Unity Console.";
+                var debugLabel = debugLogsToggle?.parent?.Q<Label>();
+                if (debugLabel != null)
+                    debugLabel.tooltip = debugLogsToggle.tooltip;
+            }
+            if (devModeForceRefreshToggle != null)
+            {
+                devModeForceRefreshToggle.tooltip = "When enabled, generated uvx commands add '--no-cache --refresh' before launching (slower startup, but avoids stale cached builds while iterating on the Server).";
+                var forceRefreshLabel = devModeForceRefreshToggle?.parent?.Q<Label>();
+                if (forceRefreshLabel != null)
+                    forceRefreshLabel.tooltip = devModeForceRefreshToggle.tooltip;
+            }
+            if (testConnectionButton != null)
+                testConnectionButton.tooltip = "Test the connection between Unity and the MCP server.";
+            if (deploySourcePath != null)
+                deploySourcePath.tooltip = "Copy a MCPForUnity folder into this project's package location.";
+
+            // Set tooltips for buttons
+            if (browseUvxButton != null)
+                browseUvxButton.tooltip = "Browse for uvx executable";
+            if (clearUvxButton != null)
+                clearUvxButton.tooltip = "Clear override and use auto-detection";
+            if (browseGitUrlButton != null)
+                browseGitUrlButton.tooltip = "Select local server source folder";
+            if (clearGitUrlButton != null)
+                clearGitUrlButton.tooltip = "Clear override and use default PyPI package";
+            if (browseDeploySourceButton != null)
+                browseDeploySourceButton.tooltip = "Select MCPForUnity source folder";
+            if (clearDeploySourceButton != null)
+                clearDeploySourceButton.tooltip = "Clear deployment source path";
+            if (deployButton != null)
+                deployButton.tooltip = "Copy MCPForUnity to this project's package location";
+            if (deployRestoreButton != null)
+                deployRestoreButton.tooltip = "Restore the last backup before deployment";
+
+            gitUrlOverride.value = EditorPrefs.GetString(EditorPrefKeys.GitUrlOverride, "");
 
             bool debugEnabled = EditorPrefs.GetBool(EditorPrefKeys.DebugLogs, false);
             debugLogsToggle.value = debugEnabled;
             McpLog.SetDebugLoggingEnabled(debugEnabled);
 
-            validationLevelField.Init(ValidationLevel.Standard);
-            int savedLevel = EditorPrefs.GetInt(EditorPrefKeys.ValidationLevel, 1);
-            currentValidationLevel = (ValidationLevel)Mathf.Clamp(savedLevel, 0, 3);
-            validationLevelField.value = currentValidationLevel;
-            UpdateValidationDescription();
-
-            advancedSettingsFoldout.value = false;
-            gitUrlOverride.value = EditorPrefs.GetString(EditorPrefKeys.GitUrlOverride, "");
             devModeForceRefreshToggle.value = EditorPrefs.GetBool(EditorPrefKeys.DevModeForceServerRefresh, false);
-
+            UpdatePathOverrides();
             UpdateDeploymentSection();
         }
 
         private void RegisterCallbacks()
         {
-            debugLogsToggle.RegisterValueChangedCallback(evt =>
-            {
-                McpLog.SetDebugLoggingEnabled(evt.newValue);
-            });
-
-            validationLevelField.RegisterValueChangedCallback(evt =>
-            {
-                currentValidationLevel = (ValidationLevel)evt.newValue;
-                EditorPrefs.SetInt(EditorPrefKeys.ValidationLevel, (int)currentValidationLevel);
-                UpdateValidationDescription();
-            });
-
             browseUvxButton.clicked += OnBrowseUvxClicked;
             clearUvxButton.clicked += OnClearUvxClicked;
-
             browseGitUrlButton.clicked += OnBrowseGitUrlClicked;
 
             gitUrlOverride.RegisterValueChangedCallback(evt =>
@@ -154,6 +161,11 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
                 OnHttpServerCommandUpdateRequested?.Invoke();
             };
 
+            debugLogsToggle.RegisterValueChangedCallback(evt =>
+            {
+                McpLog.SetDebugLoggingEnabled(evt.newValue);
+            });
+
             devModeForceRefreshToggle.RegisterValueChangedCallback(evt =>
             {
                 EditorPrefs.SetBool(EditorPrefKeys.DevModeForceServerRefresh, evt.newValue);
@@ -167,7 +179,7 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
                 {
                     return;
                 }
-                
+
                 try
                 {
                     MCPServiceLocator.Deployment.SetStoredSourcePath(path);
@@ -183,6 +195,7 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
             clearDeploySourceButton.clicked += OnClearDeploySourceClicked;
             deployButton.clicked += OnDeployClicked;
             deployRestoreButton.clicked += OnRestoreBackupClicked;
+            testConnectionButton.clicked += () => OnTestConnectionRequested?.Invoke();
         }
 
         public void UpdatePathOverrides()
@@ -259,47 +272,11 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
             }
 
             gitUrlOverride.value = EditorPrefs.GetString(EditorPrefKeys.GitUrlOverride, "");
+            debugLogsToggle.value = EditorPrefs.GetBool(EditorPrefKeys.DebugLogs, false);
             devModeForceRefreshToggle.value = EditorPrefs.GetBool(EditorPrefKeys.DevModeForceServerRefresh, false);
             UpdateDeploymentSection();
         }
 
-        private void UpdateVersionLabel()
-        {
-            string currentVersion = AssetPathUtility.GetPackageVersion();
-            versionLabel.text = $"v{currentVersion}";
-
-            var updateCheck = MCPServiceLocator.Updates.CheckForUpdate(currentVersion);
-
-            if (updateCheck.UpdateAvailable && !string.IsNullOrEmpty(updateCheck.LatestVersion))
-            {
-                versionLabel.text = $"\u2191 v{currentVersion} (Update available: v{updateCheck.LatestVersion})";
-                versionLabel.style.color = new Color(1f, 0.7f, 0f);
-                versionLabel.tooltip = $"Version {updateCheck.LatestVersion} is available. Update via Package Manager.\n\nGit URL: https://github.com/CoplayDev/unity-mcp.git?path=/MCPForUnity";
-            }
-            else
-            {
-                versionLabel.style.color = StyleKeyword.Null;
-                versionLabel.tooltip = $"Current version: {currentVersion}";
-            }
-        }
-
-        private void UpdateValidationDescription()
-        {
-            validationDescription.text = GetValidationLevelDescription((int)currentValidationLevel);
-        }
-
-        private string GetValidationLevelDescription(int index)
-        {
-            return index switch
-            {
-                0 => "Only basic syntax checks (braces, quotes, comments)",
-                1 => "Syntax checks + Unity best practices and warnings",
-                2 => "All checks + semantic analysis and performance warnings",
-                3 => "Full semantic validation with namespace/type resolution (requires Roslyn)",
-                _ => "Standard validation"
-            };
-        }
-
         private void OnBrowseUvxClicked()
         {
             string suggested = RuntimeInformation.IsOSPlatform(OSPlatform.OSX)
@@ -439,5 +416,33 @@ namespace MCPForUnity.Editor.Windows.Components.Settings
                 ? new StyleColor(new Color(0.85f, 0.2f, 0.2f))
                 : StyleKeyword.Null;
         }
+
+        public void UpdateHealthStatus(bool isHealthy, string statusText)
+        {
+            if (healthStatus != null)
+            {
+                healthStatus.text = statusText;
+            }
+
+            if (healthIndicator != null)
+            {
+                healthIndicator.RemoveFromClassList("healthy");
+                healthIndicator.RemoveFromClassList("disconnected");
+                healthIndicator.RemoveFromClassList("unknown");
+
+                if (isHealthy)
+                {
+                    healthIndicator.AddToClassList("healthy");
+                }
+                else if (statusText == HealthStatus.Unknown)
+                {
+                    healthIndicator.AddToClassList("unknown");
+                }
+                else
+                {
+                    healthIndicator.AddToClassList("disconnected");
+                }
+            }
+        }
     }
 }

MCPForUnity/Editor/Windows/Components/Advanced/McpAdvancedSection.cs.meta

@@ -0,0 +1,11 @@
+fileFormatVersion: 2
+guid: bf87d9c1c3b287e4180379f65af95dca
+MonoImporter:
+  externalObjects: {}
+  serializedVersion: 2
+  defaultReferences: []
+  executionOrder: 0
+  icon: {instanceID: 0}
+  userData: 
+  assetBundleName: 
+  assetBundleVariant: 

MCPForUnity/Editor/Windows/Components/Advanced/McpAdvancedSection.uxml

@@ -0,0 +1,61 @@
+<ui:UXML xmlns:ui="UnityEngine.UIElements" xmlns:uie="UnityEditor.UIElements" editor-extension-mode="True">
+    <Style src="../Common.uss" />
+    <ui:VisualElement name="advanced-section" class="section">
+        <ui:Label text="Advanced Settings" class="section-title" />
+        <ui:VisualElement class="section-content">
+            <ui:VisualElement class="override-row">
+                <ui:Label text="UVX Path:" class="override-label" />
+                <ui:VisualElement class="status-indicator-small" name="uv-path-status" />
+            </ui:VisualElement>
+            <ui:VisualElement class="path-override-controls">
+                <ui:TextField name="uv-path-override" readonly="true" class="override-field" />
+                <ui:Button name="browse-uv-button" text="Browse" class="icon-button" />
+                <ui:Button name="clear-uv-button" text="Clear" class="icon-button" />
+            </ui:VisualElement>
+
+            <ui:VisualElement class="override-row" style="margin-top: 8px;">
+                <ui:Label text="Server Source:" class="override-label" />
+            </ui:VisualElement>
+            <ui:VisualElement class="path-override-controls">
+                <ui:TextField name="git-url-override" placeholder-text="/path/to/Server or git+https://..." class="override-field" />
+                <ui:Button name="browse-git-url-button" text="Select" class="icon-button" />
+                <ui:Button name="clear-git-url-button" text="Clear" class="icon-button" />
+            </ui:VisualElement>
+
+            <ui:VisualElement class="setting-row" style="margin-top: 8px;">
+                <ui:Label text="Debug Logging:" class="setting-label" />
+                <ui:Toggle name="debug-logs-toggle" class="setting-toggle" />
+            </ui:VisualElement>
+
+            <ui:VisualElement class="setting-row">
+                <ui:Label text="Server Health:" class="setting-label" />
+                <ui:VisualElement class="status-container">
+                    <ui:VisualElement name="health-indicator" class="status-dot" />
+                    <ui:Label name="health-status" text="Unknown" class="status-text" />
+                </ui:VisualElement>
+                <ui:Button name="test-connection-button" text="Test" class="action-button" />
+            </ui:VisualElement>
+
+            <ui:VisualElement class="setting-row">
+                <ui:Label text="Force Fresh Install:" class="setting-label" />
+                <ui:Toggle name="dev-mode-force-refresh-toggle" class="setting-toggle" />
+            </ui:VisualElement>
+
+            <ui:VisualElement class="override-row" style="margin-top: 8px;">
+                <ui:Label text="Package Source:" class="override-label" />
+            </ui:VisualElement>
+            <ui:VisualElement class="path-override-controls">
+                <ui:TextField name="deploy-source-path" class="override-field" />
+                <ui:Button name="browse-deploy-source-button" text="Select" class="icon-button" />
+                <ui:Button name="clear-deploy-source-button" text="Clear" class="icon-button" />
+            </ui:VisualElement>
+            <ui:Label name="deploy-target-label" class="help-text" />
+            <ui:Label name="deploy-backup-label" class="help-text" />
+            <ui:VisualElement class="path-override-controls" style="margin-top: 4px;">
+                <ui:Button name="deploy-button" text="Deploy" class="icon-button" />
+                <ui:Button name="deploy-restore-button" text="Restore" class="icon-button" />
+            </ui:VisualElement>
+            <ui:Label name="deploy-status-label" class="help-text" />
+        </ui:VisualElement>
+    </ui:VisualElement>
+</ui:UXML>

MCPForUnity/Editor/Windows/Components/Advanced/McpAdvancedSection.uxml.meta

@@ -1,5 +1,5 @@
 fileFormatVersion: 2
-guid: 405ae4db7c048f542ac9b8f83099bc45
+guid: d7e63a0b220a4c9458289415ad91e7df
 ScriptedImporter:
   internalIDToNameTable: []
   externalObjects: {}

MCPForUnity/Editor/Windows/Components/ClientConfig/McpClientConfigSection.cs

@@ -31,6 +31,7 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
         private VisualElement claudeCliPathRow;
         private TextField claudeCliPath;
         private Button browseClaudeButton;
+        private Foldout manualConfigFoldout;
         private TextField configPathField;
         private Button copyPathButton;
         private Button openFileButton;
@@ -45,6 +46,13 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
         private static readonly TimeSpan StatusRefreshInterval = TimeSpan.FromSeconds(45);
         private int selectedClientIndex = 0;
 
+        // Events
+        /// <summary>
+        /// Fired when the selected client's configured transport is detected/updated.
+        /// The parameter contains the client name and its configured transport.
+        /// </summary>
+        public event Action<string, ConfiguredTransport> OnClientTransportDetected;
+
         public VisualElement Root { get; private set; }
 
         public McpClientConfigSection(VisualElement root)
@@ -66,6 +74,7 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
             claudeCliPathRow = Root.Q<VisualElement>("claude-cli-path-row");
             claudeCliPath = Root.Q<TextField>("claude-cli-path");
             browseClaudeButton = Root.Q<Button>("browse-claude-button");
+            manualConfigFoldout = Root.Q<Foldout>("manual-config-foldout");
             configPathField = Root.Q<TextField>("config-path");
             copyPathButton = Root.Q<Button>("copy-path-button");
             openFileButton = Root.Q<Button>("open-file-button");
@@ -76,6 +85,12 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
 
         private void InitializeUI()
         {
+            // Ensure manual config foldout starts collapsed
+            if (manualConfigFoldout != null)
+            {
+                manualConfigFoldout.value = false;
+            }
+
             var clientNames = configurators.Select(c => c.DisplayName).ToList();
             clientDropdown.choices = clientNames;
             if (clientNames.Count > 0)
@@ -84,7 +99,7 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
             }
 
             claudeCliPathRow.style.display = DisplayStyle.None;
-            
+
             // Initialize the configuration display for the first selected client
             UpdateClientStatus();
             UpdateManualConfiguration();
@@ -510,27 +525,48 @@ namespace MCPForUnity.Editor.Windows.Components.ClientConfig
                 return;
             }
 
-            clientStatusLabel.text = GetStatusDisplayString(client.Status);
-            clientStatusLabel.style.color = StyleKeyword.Null;
-
-            switch (client.Status)
+            // Check for transport mismatch
+            bool hasTransportMismatch = false;
+            if (client.ConfiguredTransport != ConfiguredTransport.Unknown)
             {
-                case McpStatus.Configured:
-                case McpStatus.Running:
-                case McpStatus.Connected:
-                    clientStatusIndicator.AddToClassList("configured");
-                    break;
-                case McpStatus.IncorrectPath:
-                case McpStatus.CommunicationError:
-                case McpStatus.NoResponse:
-                    clientStatusIndicator.AddToClassList("warning");
-                    break;
-                default:
-                    clientStatusIndicator.AddToClassList("not-configured");
-                    break;
+                bool serverUsesHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+                ConfiguredTransport serverTransport = serverUsesHttp ? ConfiguredTransport.Http : ConfiguredTransport.Stdio;
+                hasTransportMismatch = client.ConfiguredTransport != serverTransport;
             }
 
+            // If configured but with transport mismatch, show warning state
+            if (hasTransportMismatch && (client.Status == McpStatus.Configured || client.Status == McpStatus.Running || client.Status == McpStatus.Connected))
+            {
+                clientStatusLabel.text = "Transport Mismatch";
+                clientStatusIndicator.AddToClassList("warning");
+            }
+            else
+            {
+                clientStatusLabel.text = GetStatusDisplayString(client.Status);
+
+                switch (client.Status)
+                {
+                    case McpStatus.Configured:
+                    case McpStatus.Running:
+                    case McpStatus.Connected:
+                        clientStatusIndicator.AddToClassList("configured");
+                        break;
+                    case McpStatus.IncorrectPath:
+                    case McpStatus.CommunicationError:
+                    case McpStatus.NoResponse:
+                        clientStatusIndicator.AddToClassList("warning");
+                        break;
+                    default:
+                        clientStatusIndicator.AddToClassList("not-configured");
+                        break;
+                }
+            }
+
+            clientStatusLabel.style.color = StyleKeyword.Null;
             configureButton.text = client.GetConfigureActionLabel();
+
+            // Notify listeners about the client's configured transport
+            OnClientTransportDetected?.Invoke(client.DisplayName, client.ConfiguredTransport);
         }
     }
 }

MCPForUnity/Editor/Windows/Components/ClientConfig/McpClientConfigSection.uxml

@@ -20,7 +20,7 @@
                 <ui:TextField name="claude-cli-path" readonly="true" class="path-display-field" />
                 <ui:Button name="browse-claude-button" text="Browse" class="icon-button" />
             </ui:VisualElement>
-            <ui:Foldout name="manual-config-foldout" text="Manual Configuration" class="manual-config-foldout">
+            <ui:Foldout name="manual-config-foldout" text="Manual Configuration" value="false" class="manual-config-foldout">
                 <ui:VisualElement class="manual-config-content">
                     <ui:Label text="Config Path:" class="config-label" />
                     <ui:VisualElement class="path-row">

MCPForUnity/Editor/Windows/Components/Common.uss

@@ -10,29 +10,38 @@
     font-size: 20px;
     -unity-font-style: bold;
     margin-bottom: 20px;
-    padding: 12px;
+    padding: 8px;
     background-color: rgba(0, 0, 0, 0.1);
     border-radius: 4px;
 }
 
 /* Section Styling */
 .section {
-    margin-bottom: 16px;
-    padding: 12px;
-    background-color: rgba(0, 0, 0, 0.05);
-    border-radius: 6px;
+    margin-bottom: 14px;
+    padding: 8px;
+    background-color: rgba(0, 0, 0, 0.04);
+    border-radius: 4px;
     border-width: 1px;
-    border-color: rgba(0, 0, 0, 0.2);
+    border-color: rgba(0, 0, 0, 0.15);
+}
+
+/* Remove bottom margin from last section in a stack */
+.section-stack > .section:last-child {
+    margin-bottom: 0px;
 }
 
 .section-title {
-    font-size: 14px;
+    font-size: 13px;
     -unity-font-style: bold;
-    margin-bottom: 12px;
+    margin-bottom: 8px;
+    padding-bottom: 6px;
+    letter-spacing: 0.3px;
+    border-bottom-width: 1px;
+    border-bottom-color: rgba(255, 255, 255, 0.08);
 }
 
 .section-content {
-    padding: 8px;
+    padding: 4px;
 }
 
 /* Setting Rows */
@@ -41,7 +50,7 @@
     flex-wrap: wrap;
     justify-content: space-between;
     align-items: center;
-    margin-bottom: 8px;
+    margin-bottom: 4px;
     min-height: 24px;
     flex-shrink: 1;
     min-width: 0;
@@ -49,7 +58,7 @@
 
 .setting-column {
     flex-direction: column;
-    margin-bottom: 8px;
+    margin-bottom: 4px;
     flex-shrink: 1;
     min-width: 0;
 }
@@ -394,6 +403,23 @@
     font-size: 12px;
 }
 
+/* Manual Command Foldout */
+.manual-command-foldout {
+    margin-top: 8px;
+    margin-bottom: 8px;
+}
+
+.manual-command-foldout > .unity-foldout__toggle {
+    font-size: 11px;
+    padding: 4px;
+    background-color: rgba(0, 0, 0, 0.05);
+    border-radius: 3px;
+}
+
+.manual-command-foldout > .unity-foldout__content {
+    margin-top: 4px;
+}
+
 .advanced-settings-content {
     padding: 8px;
     margin-top: 8px;
@@ -496,6 +522,10 @@
     border-color: rgba(0, 0, 0, 0.15);
 }
 
+.unity-theme-light .section-title {
+    border-bottom-color: rgba(0, 0, 0, 0.1);
+}
+
 .unity-theme-dark .tool-tag {
     color: rgba(220, 220, 220, 1);
     background-color: rgba(80, 80, 80, 0.6);
@@ -547,3 +577,37 @@
 .unity-theme-light .path-display-field > .unity-text-field__input {
     background-color: rgba(0, 0, 0, 0.05);
 }
+
+/* Warning Banner (for transport mismatch, etc.) */
+.warning-banner {
+    display: none;
+    padding: 8px 12px;
+    margin-bottom: 6px;
+    background-color: rgba(255, 180, 0, 0.2);
+    border-radius: 4px;
+    border-width: 1px;
+    border-color: rgba(255, 180, 0, 0.5);
+}
+
+.warning-banner.visible {
+    display: flex;
+}
+
+.warning-banner-text {
+    font-size: 11px;
+    white-space: normal;
+    color: rgba(180, 120, 0, 1);
+}
+
+.unity-theme-dark .warning-banner {
+    background-color: rgba(255, 180, 0, 0.15);
+    border-color: rgba(255, 180, 0, 0.4);
+}
+
+.unity-theme-dark .warning-banner-text {
+    color: rgba(255, 200, 100, 1);
+}
+
+.unity-theme-light .manual-command-foldout > .unity-foldout__toggle {
+    background-color: rgba(0, 0, 0, 0.03);
+}

MCPForUnity/Editor/Windows/Components/Connection/McpConnectionSection.cs

@@ -2,6 +2,7 @@ using System;
 using System.Threading.Tasks;
 using MCPForUnity.Editor.Constants;
 using MCPForUnity.Editor.Helpers;
+using MCPForUnity.Editor.Models;
 using MCPForUnity.Editor.Services;
 using MCPForUnity.Editor.Services.Transport;
 using UnityEditor;
@@ -27,7 +28,11 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
 
         // UI Elements
         private EnumField transportDropdown;
+        private VisualElement transportMismatchWarning;
+        private Label transportMismatchText;
         private VisualElement httpUrlRow;
+        private VisualElement httpServerControlRow;
+        private Foldout manualCommandFoldout;
         private VisualElement httpServerCommandSection;
         private TextField httpServerCommandField;
         private Button copyHttpServerCommandButton;
@@ -35,17 +40,11 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
         private TextField httpUrlField;
         private Button startHttpServerButton;
         private Button stopHttpServerButton;
-        private VisualElement projectScopedToolsRow;
-        private Toggle projectScopedToolsToggle;
         private VisualElement unitySocketPortRow;
         private TextField unityPortField;
         private VisualElement statusIndicator;
         private Label connectionStatusLabel;
         private Button connectionToggleButton;
-        private VisualElement healthIndicator;
-        private Label healthStatusLabel;
-        private VisualElement healthRow;
-        private Button testConnectionButton;
 
         private bool connectionToggleInProgress;
         private bool httpServerToggleInProgress;
@@ -54,11 +53,8 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
         private double lastLocalServerRunningPollTime;
         private bool lastLocalServerRunning;
 
-        // Health status constants
-        private const string HealthStatusUnknown = "Unknown";
-        private const string HealthStatusHealthy = "Healthy";
-        private const string HealthStatusPingFailed = "Ping Failed";
-        private const string HealthStatusUnhealthy = "Unhealthy";
+        // Reference to Advanced section for health status updates
+        private Action<bool, string> onHealthStatusUpdate;
 
         // Events
         public event Action OnManualConfigUpdateRequested;
@@ -66,6 +62,11 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
 
         public VisualElement Root { get; private set; }
 
+        public void SetHealthStatusUpdateCallback(Action<bool, string> callback)
+        {
+            onHealthStatusUpdate = callback;
+        }
+
         public McpConnectionSection(VisualElement root)
         {
             Root = root;
@@ -77,7 +78,11 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
         private void CacheUIElements()
         {
             transportDropdown = Root.Q<EnumField>("transport-dropdown");
+            transportMismatchWarning = Root.Q<VisualElement>("transport-mismatch-warning");
+            transportMismatchText = Root.Q<Label>("transport-mismatch-text");
             httpUrlRow = Root.Q<VisualElement>("http-url-row");
+            httpServerControlRow = Root.Q<VisualElement>("http-server-control-row");
+            manualCommandFoldout = Root.Q<Foldout>("manual-command-foldout");
             httpServerCommandSection = Root.Q<VisualElement>("http-server-command-section");
             httpServerCommandField = Root.Q<TextField>("http-server-command");
             copyHttpServerCommandButton = Root.Q<Button>("copy-http-server-command-button");
@@ -85,21 +90,21 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             httpUrlField = Root.Q<TextField>("http-url");
             startHttpServerButton = Root.Q<Button>("start-http-server-button");
             stopHttpServerButton = Root.Q<Button>("stop-http-server-button");
-            projectScopedToolsRow = Root.Q<VisualElement>("project-scoped-tools-row");
-            projectScopedToolsToggle = Root.Q<Toggle>("project-scoped-tools-toggle");
             unitySocketPortRow = Root.Q<VisualElement>("unity-socket-port-row");
             unityPortField = Root.Q<TextField>("unity-port");
             statusIndicator = Root.Q<VisualElement>("status-indicator");
             connectionStatusLabel = Root.Q<Label>("connection-status");
             connectionToggleButton = Root.Q<Button>("connection-toggle");
-            healthIndicator = Root.Q<VisualElement>("health-indicator");
-            healthStatusLabel = Root.Q<Label>("health-status");
-            healthRow = Root.Q<VisualElement>("health-row");
-            testConnectionButton = Root.Q<Button>("test-connection-button");
         }
 
         private void InitializeUI()
         {
+            // Ensure manual command foldout starts collapsed
+            if (manualCommandFoldout != null)
+            {
+                manualCommandFoldout.value = false;
+            }
+
             transportDropdown.Init(TransportProtocol.HTTPLocal);
             bool useHttpTransport = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
             if (!useHttpTransport)
@@ -126,15 +131,15 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
                 transportDropdown.value = scope == "remote" ? TransportProtocol.HTTPRemote : TransportProtocol.HTTPLocal;
             }
 
-            httpUrlField.value = HttpEndpointUtility.GetBaseUrl();
+            // Set tooltips
+            if (httpUrlField != null)
+                httpUrlField.tooltip = "HTTP endpoint URL for the MCP server. Use localhost for local servers.";
+            if (unityPortField != null)
+                unityPortField.tooltip = "Port for Unity's internal MCP bridge socket. Used for stdio transport.";
+            if (connectionToggleButton != null)
+                connectionToggleButton.tooltip = "Start or end the MCP session between Unity and the server.";
 
-            if (projectScopedToolsToggle != null)
-            {
-                projectScopedToolsToggle.value = EditorPrefs.GetBool(
-                    EditorPrefKeys.ProjectScopedToolsLocalHttp,
-                    false
-                );
-            }
+            httpUrlField.value = HttpEndpointUtility.GetBaseUrl();
 
             int unityPort = EditorPrefs.GetInt(EditorPrefKeys.UnitySocketPort, 0);
             if (unityPort == 0)
@@ -146,16 +151,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             UpdateHttpFieldVisibility();
             RefreshHttpUi();
             UpdateConnectionStatus();
-
-            // Explain what "Health" means (it is a separate verify/ping check and can differ from session state).
-            if (healthStatusLabel != null)
-            {
-                healthStatusLabel.tooltip = "Health is a lightweight verify/ping of the active transport. A session can be active while health is degraded.";
-            }
-            if (healthIndicator != null)
-            {
-                healthIndicator.tooltip = healthStatusLabel?.tooltip;
-            }
         }
 
         private void RegisterCallbacks()
@@ -243,16 +238,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
                 };
             }
 
-            if (projectScopedToolsToggle != null)
-            {
-                projectScopedToolsToggle.RegisterValueChangedCallback(evt =>
-                {
-                    EditorPrefs.SetBool(EditorPrefKeys.ProjectScopedToolsLocalHttp, evt.newValue);
-                    UpdateHttpServerCommandDisplay();
-                    OnManualConfigUpdateRequested?.Invoke();
-                });
-            }
-
             if (copyHttpServerCommandButton != null)
             {
                 copyHttpServerCommandButton.clicked += () =>
@@ -276,7 +261,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             });
 
             connectionToggleButton.clicked += OnConnectionToggleClicked;
-            testConnectionButton.clicked += OnTestConnectionClicked;
         }
 
         private void PersistHttpUrlFromField()
@@ -327,20 +311,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
                 connectionToggleButton.style.display = showSessionToggle ? DisplayStyle.Flex : DisplayStyle.None;
             }
 
-            // Hide "Test" buttons unless Debug Mode is enabled.
-            if (testConnectionButton != null)
-            {
-                testConnectionButton.style.display = debugMode ? DisplayStyle.Flex : DisplayStyle.None;
-            }
-
-            // Health is useful mainly for diagnostics: hide it once we're "Healthy" unless Debug Mode is enabled.
-            // If health is degraded, keep it visible even outside Debug Mode so it can act as a signal.
-            if (healthRow != null)
-            {
-                bool showHealth = debugMode || (isRunning && lastHealthStatus != HealthStatusHealthy);
-                healthRow.style.display = showHealth ? DisplayStyle.Flex : DisplayStyle.None;
-            }
-
             if (isRunning)
             {
                 // Show instance name (project folder name) for better identification in multi-instance scenarios.
@@ -387,11 +357,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
                 
                 unityPortField.SetEnabled(!isStdioResuming);
 
-                healthStatusLabel.text = HealthStatusUnknown;
-                healthIndicator.RemoveFromClassList("healthy");
-                healthIndicator.RemoveFromClassList("warning");
-                healthIndicator.AddToClassList("unknown");
-                
                 int savedPort = EditorPrefs.GetInt(EditorPrefKeys.UnitySocketPort, 0);
                 unityPortField.value = (savedPort == 0 
                     ? bridgeService.CurrentPort 
@@ -487,26 +452,13 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
         private void UpdateHttpFieldVisibility()
         {
             bool useHttp = (TransportProtocol)transportDropdown.value != TransportProtocol.Stdio;
+            bool httpLocalSelected = IsHttpLocalSelected();
 
             httpUrlRow.style.display = useHttp ? DisplayStyle.Flex : DisplayStyle.None;
-            UpdateProjectScopedToolsVisibility();
+            httpServerControlRow.style.display = useHttp && httpLocalSelected ? DisplayStyle.Flex : DisplayStyle.None;
             unitySocketPortRow.style.display = useHttp ? DisplayStyle.None : DisplayStyle.Flex;
         }
 
-        private void UpdateProjectScopedToolsVisibility()
-        {
-            if (projectScopedToolsRow == null)
-            {
-                return;
-            }
-
-            bool useHttp = transportDropdown != null && (TransportProtocol)transportDropdown.value != TransportProtocol.Stdio;
-            bool httpLocalSelected = IsHttpLocalSelected();
-            projectScopedToolsRow.style.display = useHttp && httpLocalSelected
-                ? DisplayStyle.Flex
-                : DisplayStyle.None;
-        }
-
         private bool IsHttpLocalSelected()
         {
             return transportDropdown != null && (TransportProtocol)transportDropdown.value == TransportProtocol.HTTPLocal;
@@ -562,7 +514,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
         {
             UpdateStartHttpButtonState();
             UpdateHttpServerCommandDisplay();
-            UpdateProjectScopedToolsVisibility();
         }
 
         private async void OnHttpServerToggleClicked()
@@ -759,11 +710,6 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             }
         }
 
-        private async void OnTestConnectionClicked()
-        {
-            await VerifyBridgeConnectionAsync();
-        }
-
         private async Task EndOrphanedSessionAsync()
         {
             // Fire-and-forget cleanup of orphaned session when server is no longer running.
@@ -808,33 +754,26 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             var bridgeService = MCPServiceLocator.Bridge;
             if (!bridgeService.IsRunning)
             {
-                healthStatusLabel.text = HealthStatusUnknown;
-                healthIndicator.RemoveFromClassList("healthy");
-                healthIndicator.RemoveFromClassList("warning");
-                healthIndicator.AddToClassList("unknown");
-                
+                onHealthStatusUpdate?.Invoke(false, HealthStatus.Unknown);
+
                 // Only log if state changed
-                if (lastHealthStatus != HealthStatusUnknown)
+                if (lastHealthStatus != HealthStatus.Unknown)
                 {
                     McpLog.Warn("Cannot verify connection: Bridge is not running");
-                    lastHealthStatus = HealthStatusUnknown;
+                    lastHealthStatus = HealthStatus.Unknown;
                 }
                 return;
             }
 
             var result = await bridgeService.VerifyAsync();
 
-            healthIndicator.RemoveFromClassList("healthy");
-            healthIndicator.RemoveFromClassList("warning");
-            healthIndicator.RemoveFromClassList("unknown");
-
             string newStatus;
+            bool isHealthy;
             if (result.Success && result.PingSucceeded)
             {
-                newStatus = HealthStatusHealthy;
-                healthStatusLabel.text = newStatus;
-                healthIndicator.AddToClassList("healthy");
-                
+                newStatus = HealthStatus.Healthy;
+                isHealthy = true;
+
                 // Only log if state changed
                 if (lastHealthStatus != newStatus)
                 {
@@ -844,10 +783,9 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             }
             else if (result.HandshakeValid)
             {
-                newStatus = HealthStatusPingFailed;
-                healthStatusLabel.text = newStatus;
-                healthIndicator.AddToClassList("warning");
-                
+                newStatus = HealthStatus.PingFailed;
+                isHealthy = false;
+
                 // Log once per distinct warning state
                 if (lastHealthStatus != newStatus)
                 {
@@ -857,10 +795,9 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
             }
             else
             {
-                newStatus = HealthStatusUnhealthy;
-                healthStatusLabel.text = newStatus;
-                healthIndicator.AddToClassList("warning");
-                
+                newStatus = HealthStatus.Unhealthy;
+                isHealthy = false;
+
                 // Log once per distinct error state
                 if (lastHealthStatus != newStatus)
                 {
@@ -868,6 +805,56 @@ namespace MCPForUnity.Editor.Windows.Components.Connection
                     lastHealthStatus = newStatus;
                 }
             }
+
+            onHealthStatusUpdate?.Invoke(isHealthy, newStatus);
+        }
+
+        /// <summary>
+        /// Updates the transport mismatch warning banner based on the client's configured transport.
+        /// Shows a warning if the client's transport doesn't match the server's current transport setting.
+        /// </summary>
+        /// <param name="clientName">The display name of the client being checked.</param>
+        /// <param name="clientTransport">The transport the client is configured to use.</param>
+        public void UpdateTransportMismatchWarning(string clientName, ConfiguredTransport clientTransport)
+        {
+            if (transportMismatchWarning == null || transportMismatchText == null)
+                return;
+
+            // If client transport is unknown, hide the warning (we can't determine mismatch)
+            if (clientTransport == ConfiguredTransport.Unknown)
+            {
+                transportMismatchWarning.RemoveFromClassList("visible");
+                return;
+            }
+
+            // Determine the server's current transport setting
+            bool serverUsesHttp = EditorPrefs.GetBool(EditorPrefKeys.UseHttpTransport, true);
+            ConfiguredTransport serverTransport = serverUsesHttp ? ConfiguredTransport.Http : ConfiguredTransport.Stdio;
+
+            // Check for mismatch
+            bool hasMismatch = clientTransport != serverTransport;
+
+            if (hasMismatch)
+            {
+                string clientTransportName = clientTransport == ConfiguredTransport.Http ? "HTTP" : "stdio";
+                string serverTransportName = serverTransport == ConfiguredTransport.Http ? "HTTP" : "stdio";
+
+                transportMismatchText.text = $"⚠ {clientName} is configured for \"{clientTransportName}\" but server is set to \"{serverTransportName}\". " +
+                    "Click \"Configure\" in Client Configuration to update.";
+                transportMismatchWarning.AddToClassList("visible");
+            }
+            else
+            {
+                transportMismatchWarning.RemoveFromClassList("visible");
+            }
+        }
+
+        /// <summary>
+        /// Clears the transport mismatch warning banner.
+        /// </summary>
+        public void ClearTransportMismatchWarning()
+        {
+            transportMismatchWarning?.RemoveFromClassList("visible");
         }
     }
 }

MCPForUnity/Editor/Windows/Components/Connection/McpConnectionSection.uxml

@@ -1,30 +1,22 @@
 <ui:UXML xmlns:ui="UnityEngine.UIElements" xmlns:uie="UnityEditor.UIElements" editor-extension-mode="True">
     <Style src="../Common.uss" />
     <ui:VisualElement name="connection-section" class="section">
-        <ui:Label text="Connection" class="section-title" />
+        <ui:Label text="Server" class="section-title" />
         <ui:VisualElement class="section-content">
             <ui:VisualElement class="setting-row">
                 <ui:Label text="Transport:" class="setting-label" />
                 <uie:EnumField name="transport-dropdown" class="setting-dropdown-inline" />
             </ui:VisualElement>
+            <ui:VisualElement name="transport-mismatch-warning" class="warning-banner">
+                <ui:Label name="transport-mismatch-text" class="warning-banner-text" />
+            </ui:VisualElement>
             <ui:VisualElement class="setting-row" name="http-url-row">
                 <ui:Label text="HTTP URL:" class="setting-label" />
                 <ui:TextField name="http-url" class="url-field" />
             </ui:VisualElement>
-            <ui:VisualElement name="http-server-command-section" class="manual-config-content">
-                <ui:Label text="Use this command to launch the server manually:" class="config-label" />
-                <ui:VisualElement class="config-json-row">
-                    <ui:TextField name="http-server-command" readonly="true" multiline="true" class="config-json-field" />
-                    <ui:Button name="copy-http-server-command-button" text="Copy" class="icon-button-vertical" />
-                </ui:VisualElement>
-                <ui:Label name="http-server-command-hint" class="help-text" />
-                <ui:VisualElement style="flex-direction: row; justify-content: flex-start; margin-bottom: 6px;">
-                    <ui:Button name="start-http-server-button" text="Start Server" class="action-button start-server-button" style="width: auto; flex-grow: 1;" />
-                </ui:VisualElement>
-            </ui:VisualElement>
-            <ui:VisualElement class="setting-row" name="project-scoped-tools-row">
-                <ui:Label text="Project-Scoped Tools:" class="setting-label" />
-                <ui:Toggle name="project-scoped-tools-toggle" />
+            <ui:VisualElement class="setting-row" name="http-server-control-row">
+                <ui:Label text="Local Server:" class="setting-label" />
+                <ui:Button name="start-http-server-button" text="Start Server" class="action-button start-server-button" />
             </ui:VisualElement>
             <ui:VisualElement class="setting-row" name="unity-socket-port-row">
                 <ui:Label text="Unity Socket Port:" class="setting-label" />
@@ -37,14 +29,16 @@
                 </ui:VisualElement>
                 <ui:Button name="connection-toggle" text="Start" class="action-button" />
             </ui:VisualElement>
-            <ui:VisualElement class="setting-row" name="health-row">
-                <ui:Label text="Health:" class="setting-label" />
-                <ui:VisualElement class="status-container">
-                    <ui:VisualElement name="health-indicator" class="status-dot" />
-                    <ui:Label name="health-status" text="Unknown" class="status-text" />
+            <ui:Foldout name="manual-command-foldout" text="Manual Server Launch" value="false" class="manual-config-foldout">
+                <ui:VisualElement name="http-server-command-section" class="manual-config-content">
+                    <ui:Label text="Use this command to launch the server manually:" class="config-label" />
+                    <ui:VisualElement class="config-json-row">
+                        <ui:TextField name="http-server-command" readonly="true" multiline="true" class="config-json-field" />
+                        <ui:Button name="copy-http-server-command-button" text="Copy" class="icon-button-vertical" />
+                    </ui:VisualElement>
+                    <ui:Label name="http-server-command-hint" class="help-text" />
                 </ui:VisualElement>
-                <ui:Button name="test-connection-button" text="Test" class="action-button" />
-            </ui:VisualElement>
+            </ui:Foldout>
         </ui:VisualElement>
     </ui:VisualElement>
 </ui:UXML>

MCPForUnity/Editor/Windows/Components/Settings/McpSettingsSection.uxml

@@ -1,72 +0,0 @@
-<ui:UXML xmlns:ui="UnityEngine.UIElements" xmlns:uie="UnityEditor.UIElements" editor-extension-mode="True">
-    <Style src="../Common.uss" />
-    <ui:VisualElement name="settings-section" class="section">
-        <ui:Label text="Settings" class="section-title" />
-        <ui:VisualElement class="section-content">
-            <ui:VisualElement class="setting-row">
-                <ui:Label text="Version:" class="setting-label" />
-                <ui:Label text="..." name="version-label" class="setting-value" />
-            </ui:VisualElement>
-            <ui:VisualElement class="setting-row">
-                <ui:Label text="Debug Mode:" class="setting-label" />
-                <ui:Toggle name="debug-logs-toggle" class="setting-toggle" />
-            </ui:VisualElement>
-            <ui:VisualElement class="setting-column">
-                <ui:Label text="Script Validation Level:" class="setting-label" />
-                <uie:EnumField name="validation-level" class="setting-dropdown" />
-                <ui:Label name="validation-description" class="validation-description" />
-            </ui:VisualElement>
-            <ui:Foldout name="advanced-settings-foldout" text="Advanced Settings" class="advanced-settings-foldout">
-                <ui:VisualElement class="advanced-settings-content">
-                    <ui:Label text="Path Overrides (leave empty for auto-detection):" class="advanced-label" />
-                    <ui:VisualElement class="override-row">
-                        <ui:Label text="UVX Path:" class="override-label" />
-                        <ui:VisualElement class="status-indicator-small" name="uv-path-status" />
-                    </ui:VisualElement>
-                    <ui:VisualElement class="path-override-controls">
-                        <ui:TextField name="uv-path-override" readonly="true" class="override-field" />
-                        <ui:Button name="browse-uv-button" text="Browse" class="icon-button" />
-                        <ui:Button name="clear-uv-button" text="Clear" class="icon-button" />
-                    </ui:VisualElement>
-                    <ui:Label text="Server Source Override:" class="advanced-label" style="margin-top: 10px;" />
-                    <ui:Label text="Override the source used for uvx --from. Leave empty to use default package." class="help-text" />
-                    <ui:VisualElement class="override-row">
-                        <ui:Label text="Server Path/URL:" class="override-label" />
-                    </ui:VisualElement>
-                    <ui:VisualElement class="path-override-controls">
-                        <ui:TextField name="git-url-override" placeholder-text="/path/to/Server or git+https://..." class="override-field" />
-                        <ui:Button name="browse-git-url-button" text="Select" class="icon-button" />
-                        <ui:Button name="clear-git-url-button" text="Clear" class="icon-button" />
-                    </ui:VisualElement>
-                    <ui:Label text="Override example (default uses PyPI):" class="help-text" style="margin-top: 5px;" />
-                    <ui:Label text="• Local dev: /path/to/unity-mcp/Server" class="help-text" />
-
-                    <ui:Label text="Dev Mode:" class="advanced-label" style="margin-top: 10px;" />
-                    <ui:Label text="When enabled, generated uvx commands add '--no-cache --refresh' before launching (slower startup, but avoids stale cached builds while iterating on the Server)." class="help-text" />
-                    <ui:VisualElement class="setting-row">
-                        <ui:Label text="Force fresh server install:" class="setting-label" />
-                        <ui:Toggle name="dev-mode-force-refresh-toggle" class="setting-toggle" />
-                    </ui:VisualElement>
-
-                    <ui:Label text="Local Package Deployment:" class="advanced-label" style="margin-top: 12px;" />
-                    <ui:Label text="Copy a MCPForUnity folder into this project's package location." class="help-text" />
-                    <ui:VisualElement class="override-row">
-                        <ui:Label text="MCP For Unity Source Folder:" class="override-label" />
-                    </ui:VisualElement>
-                    <ui:VisualElement class="path-override-controls">
-                        <ui:TextField name="deploy-source-path" class="override-field" />
-                        <ui:Button name="browse-deploy-source-button" text="Select" class="icon-button" />
-                        <ui:Button name="clear-deploy-source-button" text="Clear" class="icon-button" />
-                    </ui:VisualElement>
-                    <ui:Label name="deploy-target-label" class="help-text" />
-                    <ui:Label name="deploy-backup-label" class="help-text" />
-                    <ui:VisualElement class="path-override-controls" style="margin-top: 4px;">
-                        <ui:Button name="deploy-button" text="Deploy to Project" class="icon-button" />
-                        <ui:Button name="deploy-restore-button" text="Restore Last Backup" class="icon-button" />
-                    </ui:VisualElement>
-                    <ui:Label name="deploy-status-label" class="help-text" />
-                </ui:VisualElement>
-            </ui:Foldout>
-        </ui:VisualElement>
-    </ui:VisualElement>
-</ui:UXML>

MCPForUnity/Editor/Windows/Components/Tools/McpToolsSection.cs

@@ -17,6 +17,7 @@ namespace MCPForUnity.Editor.Windows.Components.Tools
     public class McpToolsSection
     {
         private readonly Dictionary<string, Toggle> toolToggleMap = new();
+        private Toggle projectScopedToolsToggle;
         private Label summaryLabel;
         private Label noteLabel;
         private Button enableAllButton;
@@ -36,6 +37,7 @@ namespace MCPForUnity.Editor.Windows.Components.Tools
 
         private void CacheUIElements()
         {
+            projectScopedToolsToggle = Root.Q<Toggle>("project-scoped-tools-toggle");
             summaryLabel = Root.Q<Label>("tools-summary");
             noteLabel = Root.Q<Label>("tools-note");
             enableAllButton = Root.Q<Button>("enable-all-button");
@@ -46,6 +48,19 @@ namespace MCPForUnity.Editor.Windows.Components.Tools
 
         private void RegisterCallbacks()
         {
+            if (projectScopedToolsToggle != null)
+            {
+                projectScopedToolsToggle.value = EditorPrefs.GetBool(
+                    EditorPrefKeys.ProjectScopedToolsLocalHttp,
+                    false
+                );
+                projectScopedToolsToggle.tooltip = "When enabled, register project-scoped tools with HTTP Local transport. Allows per-project tool customization.";
+                projectScopedToolsToggle.RegisterValueChangedCallback(evt =>
+                {
+                    EditorPrefs.SetBool(EditorPrefKeys.ProjectScopedToolsLocalHttp, evt.newValue);
+                });
+            }
+
             if (enableAllButton != null)
             {
                 enableAllButton.AddToClassList("tool-action-button");

MCPForUnity/Editor/Windows/Components/Tools/McpToolsSection.uxml

@@ -2,6 +2,10 @@
     <ui:VisualElement name="tools-section" class="section">
         <ui:Label text="Tools" class="section-title" />
         <ui:VisualElement class="section-content">
+            <ui:VisualElement class="setting-row" name="project-scoped-tools-row">
+                <ui:Label text="Project-Scoped Tools:" class="setting-label" />
+                <ui:Toggle name="project-scoped-tools-toggle" />
+            </ui:VisualElement>
             <ui:Label name="tools-summary" class="help-text" text="Discovering tools..." />
             <ui:VisualElement name="tools-actions" class="tool-actions">
                 <ui:Button name="enable-all-button" text="Enable All" class="tool-action-button" />

MCPForUnity/Editor/Windows/Components/Validation.meta

@@ -0,0 +1,8 @@
+fileFormatVersion: 2
+guid: f68f3b0ff9e214244ad7e57b106d5c60
+folderAsset: yes
+DefaultImporter:
+  externalObjects: {}
+  userData: 
+  assetBundleName: 
+  assetBundleVariant: 

MCPForUnity/Editor/Windows/Components/Validation/McpValidationSection.cs

@@ -0,0 +1,79 @@
+using System;
+using MCPForUnity.Editor.Constants;
+using UnityEditor;
+using UnityEditor.UIElements;
+using UnityEngine;
+using UnityEngine.UIElements;
+
+namespace MCPForUnity.Editor.Windows.Components.Validation
+{
+    /// <summary>
+    /// Controller for the Script Validation section.
+    /// Handles script validation level settings.
+    /// </summary>
+    public class McpValidationSection
+    {
+        // UI Elements
+        private EnumField validationLevelField;
+        private Label validationDescription;
+
+        // Data
+        private ValidationLevel currentValidationLevel = ValidationLevel.Standard;
+
+        // Validation levels
+        public enum ValidationLevel
+        {
+            Basic,
+            Standard,
+            Comprehensive,
+            Strict
+        }
+
+        public VisualElement Root { get; private set; }
+
+        public McpValidationSection(VisualElement root)
+        {
+            Root = root;
+            CacheUIElements();
+            InitializeUI();
+            RegisterCallbacks();
+        }
+
+        private void CacheUIElements()
+        {
+            validationLevelField = Root.Q<EnumField>("validation-level");
+            validationDescription = Root.Q<Label>("validation-description");
+        }
+
+        private void InitializeUI()
+        {
+            validationLevelField.Init(ValidationLevel.Standard);
+            int savedLevel = EditorPrefs.GetInt(EditorPrefKeys.ValidationLevel, 1);
+            currentValidationLevel = (ValidationLevel)Mathf.Clamp(savedLevel, 0, 3);
+            validationLevelField.value = currentValidationLevel;
+            UpdateValidationDescription();
+        }
+
+        private void RegisterCallbacks()
+        {
+            validationLevelField.RegisterValueChangedCallback(evt =>
+            {
+                currentValidationLevel = (ValidationLevel)evt.newValue;
+                EditorPrefs.SetInt(EditorPrefKeys.ValidationLevel, (int)currentValidationLevel);
+                UpdateValidationDescription();
+            });
+        }
+
+        private void UpdateValidationDescription()
+        {
+            validationDescription.text = currentValidationLevel switch
+            {
+                ValidationLevel.Basic => "Basic: Validates syntax only. Fast compilation checks.",
+                ValidationLevel.Standard => "Standard (Recommended): Checks syntax + common errors. Balanced speed and coverage.",
+                ValidationLevel.Comprehensive => "Comprehensive: Detailed validation including code quality. Slower but thorough.",
+                ValidationLevel.Strict => "Strict: Maximum validation + warnings as errors. Slowest but catches all issues.",
+                _ => "Unknown validation level"
+            };
+        }
+    }
+}

MCPForUnity/Editor/Windows/Components/Validation/McpValidationSection.cs.meta

@@ -0,0 +1,11 @@
+fileFormatVersion: 2
+guid: c65b5fd2ed3efbf469bbc0a089f845e3
+MonoImporter:
+  externalObjects: {}
+  serializedVersion: 2
+  defaultReferences: []
+  executionOrder: 0
+  icon: {instanceID: 0}
+  userData: 
+  assetBundleName: 
+  assetBundleVariant: 

MCPForUnity/Editor/Windows/Components/Validation/McpValidationSection.uxml

@@ -0,0 +1,13 @@
+<ui:UXML xmlns:ui="UnityEngine.UIElements" xmlns:uie="UnityEditor.UIElements" editor-extension-mode="True">
+    <Style src="../Common.uss" />
+    <ui:VisualElement name="validation-section" class="section">
+        <ui:Label text="Script Validation" class="section-title" />
+        <ui:VisualElement class="section-content">
+            <ui:VisualElement class="setting-column">
+                <ui:Label text="Validation Level:" class="setting-label" />
+                <uie:EnumField name="validation-level" class="setting-dropdown" />
+                <ui:Label name="validation-description" class="validation-description" />
+            </ui:VisualElement>
+        </ui:VisualElement>
+    </ui:VisualElement>
+</ui:UXML>

MCPForUnity/Editor/Windows/Components/Validation/McpValidationSection.uxml.meta

@@ -0,0 +1,10 @@
+fileFormatVersion: 2
+guid: 3f682815a83bb6841ac61f7f399d903c
+ScriptedImporter:
+  internalIDToNameTable: []
+  externalObjects: {}
+  serializedVersion: 2
+  userData: 
+  assetBundleName: 
+  assetBundleVariant: 
+  script: {fileID: 13804, guid: 0000000000000000e000000000000000, type: 0}

MCPForUnity/Editor/Windows/MCPForUnityEditorWindow.cs

@@ -5,10 +5,11 @@ using System.Threading.Tasks;
 using MCPForUnity.Editor.Constants;
 using MCPForUnity.Editor.Helpers;
 using MCPForUnity.Editor.Services;
+using MCPForUnity.Editor.Windows.Components.Advanced;
 using MCPForUnity.Editor.Windows.Components.ClientConfig;
 using MCPForUnity.Editor.Windows.Components.Connection;
-using MCPForUnity.Editor.Windows.Components.Settings;
 using MCPForUnity.Editor.Windows.Components.Tools;
+using MCPForUnity.Editor.Windows.Components.Validation;
 using UnityEditor;
 using UnityEditor.UIElements;
 using UnityEngine;
@@ -19,14 +20,24 @@ namespace MCPForUnity.Editor.Windows
     public class MCPForUnityEditorWindow : EditorWindow
     {
         // Section controllers
-        private McpSettingsSection settingsSection;
         private McpConnectionSection connectionSection;
         private McpClientConfigSection clientConfigSection;
+        private McpValidationSection validationSection;
+        private McpAdvancedSection advancedSection;
         private McpToolsSection toolsSection;
 
-        private ToolbarToggle settingsTabToggle;
+        // UI Elements
+        private Label versionLabel;
+        private VisualElement updateNotification;
+        private Label updateNotificationText;
+
+        private ToolbarToggle clientsTabToggle;
+        private ToolbarToggle validationTabToggle;
+        private ToolbarToggle advancedTabToggle;
         private ToolbarToggle toolsTabToggle;
-        private VisualElement settingsPanel;
+        private VisualElement clientsPanel;
+        private VisualElement validationPanel;
+        private VisualElement advancedPanel;
         private VisualElement toolsPanel;
 
         private static readonly HashSet<MCPForUnityEditorWindow> OpenWindows = new();
@@ -37,7 +48,9 @@ namespace MCPForUnity.Editor.Windows
 
         private enum ActivePanel
         {
-            Settings,
+            Clients,
+            Validation,
+            Advanced,
             Tools
         }
 
@@ -53,7 +66,7 @@ namespace MCPForUnity.Editor.Windows
         public static void ShowWindow()
         {
             var window = GetWindow<MCPForUnityEditorWindow>("MCP For Unity");
-            window.minSize = new Vector2(500, 600);
+            window.minSize = new Vector2(500, 340);
         }
 
         // Helper to check and manage open windows from other classes
@@ -124,20 +137,41 @@ namespace MCPForUnity.Editor.Windows
                 rootVisualElement.styleSheets.Add(commonStyleSheet);
             }
 
-            settingsPanel = rootVisualElement.Q<VisualElement>("settings-panel");
+            // Cache UI elements
+            versionLabel = rootVisualElement.Q<Label>("version-label");
+            updateNotification = rootVisualElement.Q<VisualElement>("update-notification");
+            updateNotificationText = rootVisualElement.Q<Label>("update-notification-text");
+
+            clientsPanel = rootVisualElement.Q<VisualElement>("clients-panel");
+            validationPanel = rootVisualElement.Q<VisualElement>("validation-panel");
+            advancedPanel = rootVisualElement.Q<VisualElement>("advanced-panel");
             toolsPanel = rootVisualElement.Q<VisualElement>("tools-panel");
-            var settingsContainer = rootVisualElement.Q<VisualElement>("settings-container");
+            var clientsContainer = rootVisualElement.Q<VisualElement>("clients-container");
+            var validationContainer = rootVisualElement.Q<VisualElement>("validation-container");
+            var advancedContainer = rootVisualElement.Q<VisualElement>("advanced-container");
             var toolsContainer = rootVisualElement.Q<VisualElement>("tools-container");
 
-            if (settingsPanel == null || toolsPanel == null)
+            if (clientsPanel == null || validationPanel == null || advancedPanel == null || toolsPanel == null)
             {
                 McpLog.Error("Failed to find tab panels in UXML");
                 return;
             }
 
-            if (settingsContainer == null)
+            if (clientsContainer == null)
             {
-                McpLog.Error("Failed to find settings-container in UXML");
+                McpLog.Error("Failed to find clients-container in UXML");
+                return;
+            }
+
+            if (validationContainer == null)
+            {
+                McpLog.Error("Failed to find validation-container in UXML");
+                return;
+            }
+
+            if (advancedContainer == null)
+            {
+                McpLog.Error("Failed to find advanced-container in UXML");
                 return;
             }
 
@@ -147,23 +181,15 @@ namespace MCPForUnity.Editor.Windows
                 return;
             }
 
-            SetupTabs();
-
-            // Load and initialize Settings section
-            var settingsTree = AssetDatabase.LoadAssetAtPath<VisualTreeAsset>(
-                $"{basePath}/Editor/Windows/Components/Settings/McpSettingsSection.uxml"
-            );
-            if (settingsTree != null)
+            // Initialize version label
+            if (versionLabel != null)
             {
-                var settingsRoot = settingsTree.Instantiate();
-                settingsContainer.Add(settingsRoot);
-                settingsSection = new McpSettingsSection(settingsRoot);
-                settingsSection.OnGitUrlChanged += () =>
-                    clientConfigSection?.UpdateManualConfiguration();
-                settingsSection.OnHttpServerCommandUpdateRequested += () =>
-                    connectionSection?.UpdateHttpServerCommandDisplay();
+                string version = AssetPathUtility.GetPackageVersion();
+                versionLabel.text = $"v{version}";
             }
 
+            SetupTabs();
+
             // Load and initialize Connection section
             var connectionTree = AssetDatabase.LoadAssetAtPath<VisualTreeAsset>(
                 $"{basePath}/Editor/Windows/Components/Connection/McpConnectionSection.uxml"
@@ -171,7 +197,7 @@ namespace MCPForUnity.Editor.Windows
             if (connectionTree != null)
             {
                 var connectionRoot = connectionTree.Instantiate();
-                settingsContainer.Add(connectionRoot);
+                clientsContainer.Add(connectionRoot);
                 connectionSection = new McpConnectionSection(connectionRoot);
                 connectionSection.OnManualConfigUpdateRequested += () =>
                     clientConfigSection?.UpdateManualConfiguration();
@@ -186,8 +212,50 @@ namespace MCPForUnity.Editor.Windows
             if (clientConfigTree != null)
             {
                 var clientConfigRoot = clientConfigTree.Instantiate();
-                settingsContainer.Add(clientConfigRoot);
+                clientsContainer.Add(clientConfigRoot);
                 clientConfigSection = new McpClientConfigSection(clientConfigRoot);
+
+                // Wire up transport mismatch detection: when client status is checked,
+                // update the connection section's warning banner if there's a mismatch
+                clientConfigSection.OnClientTransportDetected += (clientName, transport) =>
+                    connectionSection?.UpdateTransportMismatchWarning(clientName, transport);
+            }
+
+            // Load and initialize Validation section
+            var validationTree = AssetDatabase.LoadAssetAtPath<VisualTreeAsset>(
+                $"{basePath}/Editor/Windows/Components/Validation/McpValidationSection.uxml"
+            );
+            if (validationTree != null)
+            {
+                var validationRoot = validationTree.Instantiate();
+                validationContainer.Add(validationRoot);
+                validationSection = new McpValidationSection(validationRoot);
+            }
+
+            // Load and initialize Advanced section
+            var advancedTree = AssetDatabase.LoadAssetAtPath<VisualTreeAsset>(
+                $"{basePath}/Editor/Windows/Components/Advanced/McpAdvancedSection.uxml"
+            );
+            if (advancedTree != null)
+            {
+                var advancedRoot = advancedTree.Instantiate();
+                advancedContainer.Add(advancedRoot);
+                advancedSection = new McpAdvancedSection(advancedRoot);
+
+                // Wire up events from Advanced section
+                advancedSection.OnGitUrlChanged += () =>
+                    clientConfigSection?.UpdateManualConfiguration();
+                advancedSection.OnHttpServerCommandUpdateRequested += () =>
+                    connectionSection?.UpdateHttpServerCommandDisplay();
+                advancedSection.OnTestConnectionRequested += async () =>
+                {
+                    if (connectionSection != null)
+                        await connectionSection.VerifyBridgeConnectionAsync();
+                };
+
+                // Wire up health status updates from Connection to Advanced
+                connectionSection?.SetHealthStatusUpdateCallback((isHealthy, statusText) =>
+                    advancedSection?.UpdateHealthStatus(isHealthy, statusText));
             }
 
             // Load and initialize Tools section
@@ -295,32 +363,43 @@ namespace MCPForUnity.Editor.Windows
                 _ = connectionSection?.VerifyBridgeConnectionAsync();
             }
 
-            settingsSection?.UpdatePathOverrides();
+            advancedSection?.UpdatePathOverrides();
             clientConfigSection?.RefreshSelectedClient();
         }
 
         private void SetupTabs()
         {
-            settingsTabToggle = rootVisualElement.Q<ToolbarToggle>("settings-tab");
+            clientsTabToggle = rootVisualElement.Q<ToolbarToggle>("clients-tab");
+            validationTabToggle = rootVisualElement.Q<ToolbarToggle>("validation-tab");
+            advancedTabToggle = rootVisualElement.Q<ToolbarToggle>("advanced-tab");
             toolsTabToggle = rootVisualElement.Q<ToolbarToggle>("tools-tab");
 
-            settingsPanel?.RemoveFromClassList("hidden");
+            clientsPanel?.RemoveFromClassList("hidden");
+            validationPanel?.RemoveFromClassList("hidden");
+            advancedPanel?.RemoveFromClassList("hidden");
             toolsPanel?.RemoveFromClassList("hidden");
 
-            if (settingsTabToggle != null)
+            if (clientsTabToggle != null)
             {
-                settingsTabToggle.RegisterValueChangedCallback(evt =>
+                clientsTabToggle.RegisterValueChangedCallback(evt =>
                 {
-                    if (!evt.newValue)
-                    {
-                        if (toolsTabToggle != null && !toolsTabToggle.value)
-                        {
-                            settingsTabToggle.SetValueWithoutNotify(true);
-                        }
-                        return;
-                    }
+                    if (evt.newValue) SwitchPanel(ActivePanel.Clients);
+                });
+            }
 
-                    SwitchPanel(ActivePanel.Settings);
+            if (validationTabToggle != null)
+            {
+                validationTabToggle.RegisterValueChangedCallback(evt =>
+                {
+                    if (evt.newValue) SwitchPanel(ActivePanel.Validation);
+                });
+            }
+
+            if (advancedTabToggle != null)
+            {
+                advancedTabToggle.RegisterValueChangedCallback(evt =>
+                {
+                    if (evt.newValue) SwitchPanel(ActivePanel.Advanced);
                 });
             }
 
@@ -328,23 +407,14 @@ namespace MCPForUnity.Editor.Windows
             {
                 toolsTabToggle.RegisterValueChangedCallback(evt =>
                 {
-                    if (!evt.newValue)
-                    {
-                        if (settingsTabToggle != null && !settingsTabToggle.value)
-                        {
-                            toolsTabToggle.SetValueWithoutNotify(true);
-                        }
-                        return;
-                    }
-
-                    SwitchPanel(ActivePanel.Tools);
+                    if (evt.newValue) SwitchPanel(ActivePanel.Tools);
                 });
             }
 
-            var savedPanel = EditorPrefs.GetString(EditorPrefKeys.EditorWindowActivePanel, ActivePanel.Settings.ToString());
+            var savedPanel = EditorPrefs.GetString(EditorPrefKeys.EditorWindowActivePanel, ActivePanel.Clients.ToString());
             if (!Enum.TryParse(savedPanel, out ActivePanel initialPanel))
             {
-                initialPanel = ActivePanel.Settings;
+                initialPanel = ActivePanel.Clients;
             }
 
             SwitchPanel(initialPanel);
@@ -352,26 +422,51 @@ namespace MCPForUnity.Editor.Windows
 
         private void SwitchPanel(ActivePanel panel)
         {
-            bool showSettings = panel == ActivePanel.Settings;
-
-            if (settingsPanel != null)
+            // Hide all panels
+            if (clientsPanel != null)
             {
-                settingsPanel.style.display = showSettings ? DisplayStyle.Flex : DisplayStyle.None;
+                clientsPanel.style.display = DisplayStyle.None;
+            }
+
+            if (validationPanel != null)
+            {
+                validationPanel.style.display = DisplayStyle.None;
+            }
+
+            if (advancedPanel != null)
+            {
+                advancedPanel.style.display = DisplayStyle.None;
             }
 
             if (toolsPanel != null)
             {
-                toolsPanel.style.display = showSettings ? DisplayStyle.None : DisplayStyle.Flex;
+                toolsPanel.style.display = DisplayStyle.None;
             }
 
-            settingsTabToggle?.SetValueWithoutNotify(showSettings);
-            toolsTabToggle?.SetValueWithoutNotify(!showSettings);
-
-            if (!showSettings)
+            // Show selected panel
+            switch (panel)
             {
-                EnsureToolsLoaded();
+                case ActivePanel.Clients:
+                    if (clientsPanel != null) clientsPanel.style.display = DisplayStyle.Flex;
+                    break;
+                case ActivePanel.Validation:
+                    if (validationPanel != null) validationPanel.style.display = DisplayStyle.Flex;
+                    break;
+                case ActivePanel.Advanced:
+                    if (advancedPanel != null) advancedPanel.style.display = DisplayStyle.Flex;
+                    break;
+                case ActivePanel.Tools:
+                    if (toolsPanel != null) toolsPanel.style.display = DisplayStyle.Flex;
+                    EnsureToolsLoaded();
+                    break;
             }
 
+            // Update toggle states
+            clientsTabToggle?.SetValueWithoutNotify(panel == ActivePanel.Clients);
+            validationTabToggle?.SetValueWithoutNotify(panel == ActivePanel.Validation);
+            advancedTabToggle?.SetValueWithoutNotify(panel == ActivePanel.Advanced);
+            toolsTabToggle?.SetValueWithoutNotify(panel == ActivePanel.Tools);
+
             EditorPrefs.SetString(EditorPrefKeys.EditorWindowActivePanel, panel.ToString());
         }
 

MCPForUnity/Editor/Windows/MCPForUnityEditorWindow.uss

@@ -1,34 +1,102 @@
 /* Root Layout */
 #root-container {
-    padding: 16px;
+    padding: 0px;
     flex-direction: column;
     flex-grow: 1;
     overflow: hidden;
 }
 
-/* Title */
-.title {
-    font-size: 20px;
-    -unity-font-style: bold;
-    margin-bottom: 16px;
-    padding: 12px;
-    background-color: rgba(0, 0, 0, 0.1);
+/* Header Bar */
+.header-bar {
+    flex-direction: row;
+    align-items: center;
+    justify-content: space-between;
+    padding: 12px 18px;
+    margin: 12px 12px 5px 12px;
+    min-height: 44px;
+    flex-shrink: 0;
+    background-color: rgba(0, 0, 0, 0.05);
     border-radius: 4px;
+    border-width: 1px;
+    border-color: rgba(0, 0, 0, 0.15);
+}
+
+.header-title {
+    font-size: 16px;
+    -unity-font-style: bold;
+    letter-spacing: 0.5px;
+}
+
+.header-version {
+    font-size: 11px;
+    color: rgba(180, 210, 255, 1);
+    padding: 3px 10px;
+    background-color: rgba(50, 120, 200, 0.25);
+    border-radius: 10px;
+    border-width: 1px;
+    border-color: rgba(80, 150, 220, 0.4);
+}
+
+/* Update Notification */
+.update-notification {
+    display: none;
+    padding: 8px 16px;
+    margin: 0px 12px;
+    background-color: rgba(100, 200, 100, 0.15);
+    border-radius: 4px;
+    border-width: 1px;
+    border-color: rgba(100, 200, 100, 0.3);
+}
+
+.update-notification.visible {
+    display: flex;
+}
+
+.update-notification-text {
+    font-size: 11px;
+    color: rgba(100, 200, 100, 1);
+    white-space: normal;
 }
 
 /* Tabs */
 .tab-toolbar {
-    margin-bottom: 8px;
+    margin: 8px 12px 0px 12px;
+    padding: 0px;
+    background-color: transparent;
+    border-width: 0px;
+    border-bottom-width: 1px;
+    border-bottom-color: rgba(0, 0, 0, 0.15);
 }
 
 .tab-toolbar .unity-toolbar-button {
     flex-grow: 1;
+    min-height: 32px;
+    font-size: 12px;
+    border-width: 0px;
+    background-color: transparent;
+    margin: 0px 2px 0px 0px;
+    padding: 0px 12px;
+    border-radius: 4px 4px 0px 0px;
+    margin-bottom: -1px;
+}
+
+.tab-toolbar .unity-toolbar-button:hover {
+    background-color: rgba(255, 255, 255, 0.05);
+}
+
+.tab-toolbar .unity-toolbar-button:checked {
+    background-color: rgba(0, 0, 0, 0.04);
+    border-width: 1px;
+    border-color: rgba(0, 0, 0, 0.15);
+    border-bottom-width: 1px;
+    border-bottom-color: rgba(56, 56, 56, 1);
 }
 
 /* Panels */
 .panel-scroll {
     flex-grow: 1;
-    margin-top: 8px;
+    margin: 0px;
+    padding: 0px 8px 0px 8px;
 }
 
 .hidden {
@@ -38,3 +106,28 @@
 .section-stack {
     flex-direction: column;
 }
+
+/* Light Theme */
+.unity-theme-light .header-bar {
+    background-color: rgba(0, 0, 0, 0.04);
+    border-color: rgba(0, 0, 0, 0.15);
+}
+
+.unity-theme-light .header-version {
+    background-color: rgba(0, 0, 0, 0.08);
+}
+
+.unity-theme-light .tab-toolbar .unity-toolbar-button:checked {
+    background-color: rgba(255, 255, 255, 0.5);
+    border-color: rgba(0, 0, 0, 0.15);
+    border-bottom-color: rgba(194, 194, 194, 1);
+}
+
+.unity-theme-light .update-notification {
+    background-color: rgba(100, 200, 100, 0.1);
+    border-color: rgba(100, 200, 100, 0.25);
+}
+
+.unity-theme-dark .update-notification-text {
+    color: rgba(150, 255, 150, 1);
+}

MCPForUnity/Editor/Windows/MCPForUnityEditorWindow.uxml

@@ -1,12 +1,26 @@
 <ui:UXML xmlns:ui="UnityEngine.UIElements" xmlns:uie="UnityEditor.UIElements" editor-extension-mode="True">
     <ui:VisualElement name="root-container" class="root-layout">
-        <ui:Label text="MCP For Unity" name="title" class="title" />
+        <ui:VisualElement name="header-bar" class="header-bar">
+            <ui:Label text="MCP For Unity" name="title" class="header-title" />
+            <ui:Label text="v9.1.0" name="version-label" class="header-version" />
+        </ui:VisualElement>
+        <ui:VisualElement name="update-notification" class="update-notification">
+            <ui:Label name="update-notification-text" class="update-notification-text" />
+        </ui:VisualElement>
         <uie:Toolbar name="tab-toolbar" class="tab-toolbar">
-            <uie:ToolbarToggle name="settings-tab" text="Settings" value="true" />
+            <uie:ToolbarToggle name="clients-tab" text="Connect" value="true" />
             <uie:ToolbarToggle name="tools-tab" text="Tools" />
+            <uie:ToolbarToggle name="validation-tab" text="Scripts" />
+            <uie:ToolbarToggle name="advanced-tab" text="Advanced" />
         </uie:Toolbar>
-        <ui:ScrollView name="settings-panel" class="panel-scroll" style="flex-grow: 1;">
-            <ui:VisualElement name="settings-container" class="section-stack" />
+        <ui:ScrollView name="clients-panel" class="panel-scroll" style="flex-grow: 1;">
+            <ui:VisualElement name="clients-container" class="section-stack" />
+        </ui:ScrollView>
+        <ui:ScrollView name="validation-panel" class="panel-scroll hidden" style="flex-grow: 1;">
+            <ui:VisualElement name="validation-container" class="section-stack" />
+        </ui:ScrollView>
+        <ui:ScrollView name="advanced-panel" class="panel-scroll hidden" style="flex-grow: 1;">
+            <ui:VisualElement name="advanced-container" class="section-stack" />
         </ui:ScrollView>
         <ui:ScrollView name="tools-panel" class="panel-scroll hidden" style="flex-grow: 1;">
             <ui:VisualElement name="tools-container" class="section-stack" />