fix: Address Gemini Code Assist review feedback

- Repository URL consistency: Updated all references to BeehiveInnovations/zen-mcp-server format
- Documentation clarity: Fixed misleading table headers and improved Docker configuration examples
- File conventions: Added missing final newlines to all files
- Configuration consistency: Clarified API key placeholder format in documentation

Addresses all points raised in PR #17 review by Gemini Code Assist.

🤖 Generated with Claude Code

Co-Authored-By: Claude <noreply@anthropic.com>

docs/user-guides/troubleshooting.md

@@ -393,8 +393,8 @@ cat .env | grep -v "GEMINI_API_KEY"
 ### Support Channels
 
 - 📖 [Documentation](../README.md)
-- 💬 [GitHub Discussions](https://github.com/BeehiveInnovations/gemini-mcp-server/discussions)
-- 🐛 [Issue Tracker](https://github.com/BeehiveInnovations/gemini-mcp-server/issues)
+- 💬 [GitHub Discussions](https://github.com/BeehiveInnovations/zen-mcp-server/discussions)
+- 🐛 [Issue Tracker](https://github.com/BeehiveInnovations/zen-mcp-server/issues)
 
 ### Creating Bug Reports
 
@@ -409,4 +409,4 @@ Include in your bug report:
 
 **See Also:**
 - [Installation Guide](installation.md)
-- [Configuration Guide](configuration.md)
+- [Configuration Guide](configuration.md)