Access to Private Organization Repositories in GitHub MCP Server

Describe the feature or problem you'd like to solve

Currently, GitHub MCP Server lacks the ability to access private repositories that belong to organizations where a user is a member. This is a significant limitation for professional developers who primarily work with company repositories.

A clear and concise description of what the feature or problem is:
As professional developers, the majority of our work happens in private repositories owned by our employers or client organizations. Without access to these organization-owned private repositories, GitHub MCP Server's functionality is severely limited for enterprise users and professional developers. We need a way to securely access and work with private repositories within organizations we belong to, just as we can with personal repositories.

Proposed solution

Extend GitHub MCP Server's capabilities to support authentication and access to private repositories owned by organizations where the user has appropriate permissions. This should include:

1. Support for organization-scoped tokens or authentication methods
2. Ability to browse, and work with private organization repositories
3. Respect for organization permission levels (maintaining the same access controls as GitHub.com)
4. Integration with existing MCP Server workflows for these repositories

How will it benefit GitHub MCP Server and its users?

This enhancement would dramatically increase MCP Server's utility for professional developers and enterprise users. Most professional development work happens in private organizational repositories, not personal ones. By enabling access to these repositories, MCP Server would become a viable tool for daily professional use rather than just for personal projects.

Benefits include:

• Higher adoption rates among professional developers
• Increased productivity by allowing users to work with their most important repositories
• Better integration into professional workflows
• Enabling enterprise teams to utilize MCP Server's capabilities for their critical work

Additional context

Most professional developers spend 90%+ of their working time on company repositories. Without organization repository access, MCP Server is effectively unavailable for our main development activities. This creates a significant gap between the tool's potential and its current practical utility.

This feature would transform MCP Server from a tool that's primarily useful for personal projects to one that can be integrated into professional development workflows, greatly expanding its relevance and impact in the development community.