MCP Atlassian Connection Issues in Claude Code Mode within Cursor IDE

Summary

MCP (Model Context Protocol) connections, particularly Atlassian tools, fail silently when using Claude Code mode within Cursor IDE, while the same MCP tools work correctly in native Cursor.

Environment

• IDE: Cursor IDE
• Mode: Claude Code mode (within Cursor)
• MCP Tool: Atlassian (mcp__atlassian)
• OS: macOS
• Date: 2025-07-19

Issue Description

Problem

When attempting to use MCP Atlassian tools in Claude Code mode within Cursor IDE, the tools fail silently without providing any error messages or output. The same MCP connections work perfectly in native Cursor mode.

Observed Behavior

1. Running mcp__atlassian__getAccessibleAtlassianResources returns:

``
<system>Tool ran without output or errors</system>
``

1. No actual connection is established
2. No error messages to help debug the issue
3. User cannot determine if it's a configuration issue or connection failure

Expected Behavior

1. Successful connection with list of accessible resources, OR
2. Clear error message indicating why connection failed
3. Consistent behavior between Cursor native mode and Claude Code mode

Steps to Reproduce

1. Open Cursor IDE
2. Switch to Claude Code mode
3. Attempt to run any MCP Atlassian command
4. Observe silent failure with no output

Impact

• Cannot use Jira integration for project management
• Unable to sync sprint data and issue tracking
• Reduces productivity and increases error-prone manual work

Additional Context

This issue significantly impacts teams using Atlassian tools for project management alongside Claude Code for development. The silent failure makes it impossible to debug or work around the issue.