Update references from 'create_issue' to 'issue_write' and scan for outdated MCP tools

[krugazul]

Bug Report

Description

The repository currently contains references to the deprecated 'create_issue' tool, which has now been incorporated into the 'issue_write' tool. All instances of 'create_issue' should be updated to use 'issue_write' instead. Additionally, a scan should be performed to identify and update any other outdated MCP tools in the codebase.

Steps to Reproduce

1. Search the repository for references to 'create_issue'.
2. Identify all locations where the tool is used.
3. Update these references to use 'issue_write'.
4. Scan for other outdated MCP tools and update them as needed.

Expected Behavior

• All references to deprecated MCP tools are replaced with their current versions.
• The codebase remains functional and up-to-date with the latest MCP tool standards.

Additional Context

This update is necessary to maintain compatibility and ensure best practices are followed for MCP tool usage.

[coderabbitai]

A summary of the changes CodeRabbit can apply:

• Add prominent deprecation warnings to .vscode/mcp.json, docs/config/vscode-mcp.md, docs/config/mcp-server-github.md, docs/config/vscode-settings.md, and docs/config/README.md, and create docs/updates/MCP_DEPRECATION_UPDATE.md summarizing the deprecated @modelcontextprotocol/server-github status, migration guidance, link to the official GitHub MCP Server, and note that current configs remain supported for backward compatibility.

• Add deprecation warnings and migration links for the deprecated @modelcontextprotocol/server-github package by updating .vscode/mcp.json (insert deprecation comments), marking the package as deprecated in docs/config/README.md, adding prominent deprecation notices and updated overview/config blocks in docs/config/mcp-server-github.md, docs/config/vscode-mcp.md, and docs/config/vscode-settings.md, and add a new docs/updates/MCP_DEPRECATION_UPDATE.md summarizing the deprecation, impacted files, and recommendations.

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