docs: add template maintenance section to README

Add documentation section explaining how to use the new template
maintenance scripts for keeping MCP servers synchronized with
template updates.

Includes:
- Instructions for merging template updates
- Script installation for existing projects
- References to detailed script documentation

Author: Mearman

README.md

@@ -321,6 +321,27 @@ To add CLI functionality to your MCP server (like the Wayback Machine example):
 
 This work is licensed under a [Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-nc-sa/4.0/).
 
+## Maintaining Your MCP Server
+
+### Template Updates
+
+This template includes scripts to help you merge updates from the template into your derived MCP server:
+
+1. **Merge Updates**: Use `scripts/merge-template-updates.sh` to selectively merge template improvements while preserving your customizations.
+
+2. **Analyze Differences**: Use `scripts/analyze-template-diff.sh` to understand what has changed between your server and the template.
+
+See `scripts/README.md` for detailed documentation on using these maintenance scripts.
+
+### Installing Scripts in Existing Projects
+
+If you created your MCP server before these scripts were added:
+
+```bash
+# From mcp-template directory
+./scripts/install-scripts.sh ../path-to-your-mcp-server
+```
+
 ## Contributing
 
 Contributions are welcome! Please read our contributing guidelines and submit pull requests to our repository.