Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9779

Copilot · 2026-01-12T22:43:40Z

Updates default versions for GitHub MCP Server (v0.28.1) and MCP Gateway (v0.0.47) to incorporate consolidated Projects toolset, OAuth scope filtering, HTTP transport fallback, and session initialization fixes.

Changes

Version constants (pkg/constants/constants.go)
- DefaultGitHubMCPServerVersion: v0.27.0 → v0.28.1
- DefaultMCPGatewayVersion: v0.0.39 → v0.0.47
Test expectations updated in:
- pkg/constants/constants_test.go
- pkg/workflow/docker_predownload_test.go
Workflow lock files recompiled (119 files)
- 234 references to GitHub MCP Server updated
- 228 references to MCP Gateway updated

Key Features in Updates

GitHub MCP Server v0.28.1:

Consolidated Projects toolset with remote_mcp_consolidated_projects feature flag
OAuth scope metadata and PAT scope filtering for token-based permissions
Enhanced assign_copilot_to_issue with base_ref parameter support

MCP Gateway v0.0.47:

HTTP transport fallback for non-standard MCP servers
Fixed session initialization with Mcp-Session-Id headers
Accept header support for proper content negotiation

Example Impact

Workflow lock files now reference updated versions:

- run: bash /opt/gh-aw/actions/download_docker_images.sh \
    ghcr.io/github/github-mcp-server:v0.28.1 \
    ghcr.io/githubnext/gh-aw-mcpg:v0.0.47

mcpServers:
  github:
    container: "ghcr.io/github/github-mcp-server:v0.28.1"

Original prompt

This section details on the original issue you should resolve

<issue_title>[ca] Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47</issue_title>
<issue_description># CLI Version Updates - January 12, 2026

This issue tracks updates for 2 CLI tools/containers with new versions available.

1. Update GitHub MCP Server

Version: v0.27.0 → v0.28.1 (2 releases)
Release Timeline: January 12, 2026
Repository: https://github.com/github/github-mcp-server
Release Notes: https://github.com/github/github-mcp-server/releases

Version History

v0.28.0 (January 12, 2026)
v0.28.1 (January 12, 2026)

Breaking Changes

None

New Features

Consolidated Projects toolset - Enabled via remote_mcp_consolidated_projects feature flag
OAuth scope metadata - Added to all MCP tools for better permission management
PAT scope filtering - Tools now filtered based on classic Personal Access Token scopes
list-scopes command - New command using inventory architecture for scope management
assign_copilot_to_issue enhancements - Added base_ref parameter and GraphQL-Features header support

Bug Fixes

Fixed nil pointer dereference in completion handler
Fixed --tools flag handling with feature-flagged tools and deprecation aliases
Fixed resource handler to use dependencies from context
Fixed resources/read request handling to keep all resources registered

Security

None

CLI Discovery

N/A (Docker container, not a CLI tool)

Impact

Risk: Low
Affects: All workflows using GitHub MCP Server
Migration: No migration required - backward compatible updates

2. Update MCP Gateway

Version: v0.0.39 → v0.0.47 (8 releases)
Release Timeline: January 12, 2026
Repository: https://github.com/githubnext/gh-aw-mcpg
Release Notes: https://github.com/githubnext/gh-aw-mcpg/releases
Docker Image: ghcr.io/githubnext/gh-aw-mcpg

Version History

v0.0.40 (January 12, 2026)
v0.0.41 (January 12, 2026)
v0.0.42 (January 12, 2026) - Release notes unavailable
v0.0.43 (January 12, 2026)
v0.0.44 (January 12, 2026)
v0.0.45 (January 12, 2026)
v0.0.46 (January 12, 2026)
v0.0.47 (January 12, 2026)

Breaking Changes

None

New Features

HTTP transport fallback - Automatically falls back to HTTP transport for non-standard MCP servers that don't use stdio protocol

Bug Fixes

HTTP backend session initialization - Fixed to include Mcp-Session-Id headers (formatted as gateway-init-{serverID})
Accept header support - Added Accept: application/json, text/event-stream headers for proper content negotiation
Unit test stability - Fixed test hangs in HTTP transport connection attempts
Debug logging improvements - Fixed inconsistent markdown styling in RPC message logging with uniform backtick formatting and JSON syntax highlighting

Security

None

CLI Discovery

N/A (Docker container, not a CLI tool)

Impact

Risk: Low
Affects: All workflows using MCP Gateway (sandbox.agent configuration)
Migration: No migration required - backward compatible bug fixes and compatibility improvements

GitHub MCP Server Release Highlights

v0.28.0

The release introduced consolidated Projects toolset management and token-based permission filtering. When using classic Personal Access Tokens, tools are automatically filtered based on token scopes for improved security.

v0.28.1

Patch release adding base_ref parameter and GraphQL-Features header support to the assign_copilot_to_issue tool for better issue assignment capabilities.

GitHub MCP Server Merged PRs

v0.28.0

Add OAuth scope metadata to all MCP tools github/github-mcp-server#1679 - Add OAuth scope metadata to all MCP tools
Add PAT scope filtering for stdio server github/github-mcp-server#1741 - Add PAT scope filtering for stdio server
Replace go-github-mock with stretchr/testify for actions/issues/projects tests github/github-mcp-server#1737 - Replace go-github-mock with stretchr/testify for actions/issues/projects tests
Projects consolidation github/github-mcp-server#1706 - Projects consolidation
Update command instructions for terminal usage github/github-mcp-server#1307 - Update command instructions for terminal usage
Fix nil pointer dereference in completion handler github/github-mcp-server#1754 - Fix nil pointer dereference in completion handler
Update toolset names in remote-server.md docs github/github-mcp-server#1756 - Update toolset names in remote-server.md docs
feat: Add list-scopes command using inventory architecture github/github-mcp-server#1750 - Add list-scopes command using inventory architecture
Update Claude Code installation command for v2.1.1+ add-json format github/github-mcp-server#1766 - Update Claude Code installation command for v2.1.1+
bug fix: --tools flag not working with feature-flagged tools and deprecation aliases github/github-mcp-server#1775 - Fix --tools flag with feature-flagged tools and deprecation aliases
Bringing back local mcp server registry config github/github-mcp-server#1767 - Restore local MCP server registry config
Fix docs automation to use toolset IDs instead of display names github/github-mcp-server#1780 - Fix docs automation to use toolset...

Fixes [ca] Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9770

💬 We'd love your input! Share your thoughts on Copilot coding agent in our 2 minute survey.

Co-authored-by: pelikhan <[email protected]>

…v0.0.47 Co-authored-by: pelikhan <[email protected]>

Co-authored-by: pelikhan <[email protected]>

github-actions · 2026-01-12T23:04:59Z

📰 DEVELOPING STORY: Smoke Copilot reports failed. Our correspondents are investigating the incident...

github-actions · 2026-01-12T23:05:01Z

✨ The prophecy is fulfilled... Smoke Codex has completed its mystical journey. The stars align. 🌟

github-actions · 2026-01-12T23:05:02Z

🎉 Yo ho ho! Changeset Generator found the treasure and completed successfully! ⚓💰

github-actions · 2026-01-12T23:05:03Z

🎬 THE END — Smoke Claude MISSION: ACCOMPLISHED! The hero saves the day! ✨

github-actions · 2026-01-12T23:08:17Z

Smoke Test Results (Claude)

Recent PRs:

Add action-mode: script feature flag for bash script execution #9763: Add action-mode: script feature flag for bash script execution
Add sandbox-less mode with sandbox: false configuration #9758: Add sandbox-less mode with sandbox: false configuration

✅ GitHub MCP - fetched PRs
✅ Serena Go - initialized
✅ Playwright - navigated to GitHub
✅ Tavily Search - returned 10 results
✅ File Write - created test file
✅ Bash - verified file content

Status: PASS

AI generated by Smoke Claude

github-actions · 2026-01-12T23:08:31Z

PRs: Add action-mode: script feature flag for bash script execution; Add sandbox-less mode with sandbox: false configuration
Tests: ✅ GitHub MCP PR titles | ✅ GOTOOLCHAIN=local go version | ✅ Playwright title contains "GitHub" | ❌ Tavily search tool unavailable | ✅ File write/read (/tmp/gh-aw/agent)
Overall: FAIL

AI generated by Smoke Codex

Initial plan

f4a9d8a

Copilot AI assigned Copilot and pelikhan Jan 12, 2026

Copilot started work on behalf of pelikhan January 12, 2026 22:44 View session

Copilot AI and others added 3 commits January 12, 2026 22:48

Plan: Update GitHub MCP Server and MCP Gateway versions

f77e916

Co-authored-by: pelikhan <[email protected]>

Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → …

07f0a2e

…v0.0.47 Co-authored-by: pelikhan <[email protected]>

Update test expectations for new MCP versions

d08de00

Co-authored-by: pelikhan <[email protected]>

Copilot AI changed the title ~~[WIP] Update GitHub MCP Server and Gateway to new versions~~ Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 Jan 12, 2026

Copilot AI requested a review from pelikhan January 12, 2026 23:03

Copilot finished work on behalf of pelikhan January 12, 2026 23:03

pelikhan added the smoke label Jan 12, 2026

github-actions bot added the smoke-claude label Jan 12, 2026

pelikhan marked this pull request as ready for review January 12, 2026 23:17

pelikhan merged commit 3f9e9e8 into main Jan 12, 2026
35 of 36 checks passed

pelikhan deleted the copilot/update-github-mcp-tools branch January 12, 2026 23:17

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Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9779

Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9779

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Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9779

Update GitHub MCP Server v0.27.0 → v0.28.1 and MCP Gateway v0.0.39 → v0.0.47 #9779

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Changes

Key Features in Updates

Example Impact

1. Update GitHub MCP Server

Version History

Breaking Changes

New Features

Bug Fixes

Security

CLI Discovery

Impact

2. Update MCP Gateway

Version History

Breaking Changes

New Features

Bug Fixes

Security

CLI Discovery

Impact

GitHub MCP Server Release Highlights

v0.28.0

v0.28.1

GitHub MCP Server Merged PRs

v0.28.0

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