chore: ctl reference and mcp docs updates (#430)

* chore: reorganizing cli reference and mcp docs

Signed-off-by: Aron Kerekes <arkereke@cisco.com>

* docs(dir): restore Records and Validation in Components nav

Made-with: Cursor
Signed-off-by: Aron Kerekes <arkereke@cisco.com>

* fixing index

Signed-off-by: Aron Kerekes <arkereke@cisco.com>

* implementing comments

Signed-off-by: Aron Kerekes <arkereke@cisco.com>

---------

Signed-off-by: Aron Kerekes <arkereke@cisco.com>

Author: keraron

docs/dir/.index

@@ -3,17 +3,18 @@ nav:
   - Getting Started: getting-started.md
   - Features and Usage Scenarios: scenarios.md
   - Production Deployment: prod-deployment.md
+  - CLI Guide: directory-cli.md
+  - MCP Server: directory-mcp.md
   - Federation:
     - Running a Federated Directory Instance: partner-prod-federation.md
     - Profiles: federation-profiles.md
     - Best Practices and Troubleshooting: federation-troubleshooting.md
+  - Reference:
+    - CLI Reference: directory-cli-reference.md
+    - API Reference: dir-api-reference.md
   - Architecture: architecture.md
   - Components:
     - Runtime Discovery: runtime.md
     - Event Streaming: events.md
     - Records and Validation: records-validation.md
   - Trust Model: trust-model.md
-  - CLI Reference: directory-cli.md
-  - GUI Application: directory-gui.md
-  - SDK Reference: directory-sdk.md
-  - API Reference: dir-api-reference.md