MCP servers configured via CLI not discovered by CodePilot #42

Closed
Closed
MCP servers configured via CLI not discovered by CodePilot#42

Description

@gy212
gy212
opened on Feb 9, 2026

Bug Description

CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .

Environment: Windows 11

Steps to Reproduce

  1. Configure MCP servers via Claude Code CLI:

  2. Verify servers are connected in CLI:

  3. Open CodePilot, navigate to Extensions page

  4. Expected: See reactbits and shadcn servers listed

  5. Actual: Shows "No MCP servers configured"

Root Cause

Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.

Evidence:

  • claude mcp list → shows 2 servers, both Connected
  • claude mcp get reactbits → Scope: User config
  • ~/.claude/settings.json → no mcpServers field present
  • Searching entire ~/.claude/ directory → no file contains mcpServers

Impact

  • Extensions page always shows empty
  • MCP tools are not available during chat sessions
  • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot

Proposed Fix

  1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
  2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
  3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
  4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Projects

    No projects

      Milestone

      No milestone

      Relationships

      None yet

      Development

      No branches or pull requests

      Issue actions

      , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Add copy buttons to all 
       blocks\n(function() {\n function addCopyButtons() {\n document.querySelectorAll('pre code').forEach(function(codeBlock) {\n if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;\n codeBlock.parentElement.setAttribute('data-copy-added', 'true');\n \n var btn = document.createElement('button');\n btn.textContent = 'Copy';\n btn.style.cssText = 'position:absolute;top:4px;right:4px;padding:2px 8px;font-size:11px;background:#4ecdc4;border:none;border-radius:4px;color:#1a1a2e;cursor:pointer;opacity:0.7;transition:opacity 0.2s;';\n btn.onmouseover = function() { this.style.opacity = '1'; };\n btn.onmouseout = function() { this.style.opacity = '0.7'; };\n btn.onclick = function() {\n navigator.clipboard.writeText(codeBlock.textContent).then(function() {\n btn.textContent = 'Copied!';\n setTimeout(function() { btn.textContent = 'Copy'; }, 1500);\n });\n };\n codeBlock.parentElement.style.position = 'relative';\n codeBlock.parentElement.appendChild(btn);\n });\n }\n \n addCopyButtons();\n \n // Re-run on dynamic content\n var observer = new MutationObserver(addCopyButtons);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Add Copy Buttons to Code Blocks");
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '

      Skip to content
      MCP servers configured via CLI not discovered by CodePilot #42
      Closed
      Closed
      MCP servers configured via CLI not discovered by CodePilot#42
      Description
      @gy212
      gy212
      opened on Feb 9, 2026
      Bug Description
      CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
      Environment: Windows 11
      Steps to Reproduce
      1. Configure MCP servers via Claude Code CLI:
      2. Verify servers are connected in CLI:
      3. Open CodePilot, navigate to Extensions page
      4. Expected: See reactbits and shadcn servers listed
      5. Actual: Shows "No MCP servers configured"
      Root Cause
      Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
      Evidence:
      • claude mcp list → shows 2 servers, both Connected
      • claude mcp get reactbits → Scope: User config
      • ~/.claude/settings.json → no mcpServers field present
      • Searching entire ~/.claude/ directory → no file contains mcpServers
      Impact
      • Extensions page always shows empty
      • MCP tools are not available during chat sessions
      • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
      Proposed Fix
      1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
      2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
      3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
      4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
      Metadata
      Metadata
      Assignees
      No one assigned
        Labels
        No labels
        No labels
        Projects
        No projects
          Milestone
          No milestone
          Relationships
          None yet
          Development
          No branches or pull requests
          Issue actions
          
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Force GitHub README to respect dark mode\n(function() {\n var style = document.createElement('style');\n style.textContent = '\n .markdown-body {\n color-scheme: dark light;\n }\n .markdown-body pre { background: #161b22 !important; }\n .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }\n .markdown-body table th, .markdown-body table td { border-color: #30363d !important; }\n .markdown-body img { background: #0d1117; }\n .markdown-body blockquote { border-left-color: #8b949e; }\n .markdown-body hr { border-color: #30363d; }\n ';\n document.head.appendChild(style);\n})();", "GitHub Dark Mode README Fix");
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

          Skip to content
          MCP servers configured via CLI not discovered by CodePilot #42
          Closed
          Closed
          MCP servers configured via CLI not discovered by CodePilot#42
          Description
          @gy212
          gy212
          opened on Feb 9, 2026
          Bug Description
          CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
          Environment: Windows 11
          Steps to Reproduce
          1. Configure MCP servers via Claude Code CLI:
          2. Verify servers are connected in CLI:
          3. Open CodePilot, navigate to Extensions page
          4. Expected: See reactbits and shadcn servers listed
          5. Actual: Shows "No MCP servers configured"
          Root Cause
          Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
          Evidence:
          • claude mcp list → shows 2 servers, both Connected
          • claude mcp get reactbits → Scope: User config
          • ~/.claude/settings.json → no mcpServers field present
          • Searching entire ~/.claude/ directory → no file contains mcpServers
          Impact
          • Extensions page always shows empty
          • MCP tools are not available during chat sessions
          • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
          Proposed Fix
          1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
          2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
          3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
          4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
          Metadata
          Metadata
          Assignees
          No one assigned
            Labels
            No labels
            No labels
            Projects
            No projects
              Milestone
              No milestone
              Relationships
              None yet
              Development
              No branches or pull requests
              Issue actions
              
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Highlight search terms from Google/DuckDuckGo/Bing referrer\n(function() {\n var ref = document.referrer;\n var terms = [];\n \n if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {\n var url = new URL(ref);\n var q = url.searchParams.get('q') || url.searchParams.get('p');\n if (q) {\n terms = q.split(/\\s+/).filter(function(t) { return t.length > 2; });\n }\n }\n \n if (terms.length === 0) return;\n \n var style = document.createElement('style');\n style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';\n document.head.appendChild(style);\n \n function highlight(node) {\n if (node.nodeType === 3) { // text node\n var text = node.textContent;\n var found = false;\n terms.forEach(function(term) {\n var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\') + ')', 'gi');\n if (regex.test(text)) {\n found = true;\n var frag = document.createDocumentFragment();\n var parts = text.split(regex);\n parts.forEach(function(part, i) {\n if (i % 2 === 0) {\n frag.appendChild(document.createTextNode(part));\n } else {\n var span = document.createElement('span');\n span.className = 'userscript-highlight';\n span.textContent = part;\n frag.appendChild(span);\n }\n });\n node.parentNode.replaceChild(frag, node);\n }\n });\n } else if (node.nodeType === 1 && node.childNodes) { // element\n var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];\n if (!skipTags.includes(node.tagName)) {\n Array.from(node.childNodes).forEach(highlight);\n }\n }\n }\n \n highlight(document.body);\n \n // Re-highlight on dynamic content\n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1 || node.nodeType === 3) highlight(node);\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Highlight Search Terms");
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

              Skip to content
              MCP servers configured via CLI not discovered by CodePilot #42
              Closed
              Closed
              MCP servers configured via CLI not discovered by CodePilot#42
              Description
              @gy212
              gy212
              opened on Feb 9, 2026
              Bug Description
              CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
              Environment: Windows 11
              Steps to Reproduce
              1. Configure MCP servers via Claude Code CLI:
              2. Verify servers are connected in CLI:
              3. Open CodePilot, navigate to Extensions page
              4. Expected: See reactbits and shadcn servers listed
              5. Actual: Shows "No MCP servers configured"
              Root Cause
              Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
              Evidence:
              • claude mcp list → shows 2 servers, both Connected
              • claude mcp get reactbits → Scope: User config
              • ~/.claude/settings.json → no mcpServers field present
              • Searching entire ~/.claude/ directory → no file contains mcpServers
              Impact
              • Extensions page always shows empty
              • MCP tools are not available during chat sessions
              • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
              Proposed Fix
              1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
              2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
              3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
              4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
              Metadata
              Metadata
              Assignees
              No one assigned
                Labels
                No labels
                No labels
                Projects
                No projects
                  Milestone
                  No milestone
                  Relationships
                  None yet
                  Development
                  No branches or pull requests
                  Issue actions
                  
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links");
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '

                  Skip to content
                  MCP servers configured via CLI not discovered by CodePilot #42
                  Closed
                  Closed
                  MCP servers configured via CLI not discovered by CodePilot#42
                  Description
                  @gy212
                  gy212
                  opened on Feb 9, 2026
                  Bug Description
                  CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
                  Environment: Windows 11
                  Steps to Reproduce
                  1. Configure MCP servers via Claude Code CLI:
                  2. Verify servers are connected in CLI:
                  3. Open CodePilot, navigate to Extensions page
                  4. Expected: See reactbits and shadcn servers listed
                  5. Actual: Shows "No MCP servers configured"
                  Root Cause
                  Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
                  Evidence:
                  • claude mcp list → shows 2 servers, both Connected
                  • claude mcp get reactbits → Scope: User config
                  • ~/.claude/settings.json → no mcpServers field present
                  • Searching entire ~/.claude/ directory → no file contains mcpServers
                  Impact
                  • Extensions page always shows empty
                  • MCP tools are not available during chat sessions
                  • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
                  Proposed Fix
                  1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
                  2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
                  3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
                  4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
                  Metadata
                  Metadata
                  Assignees
                  No one assigned
                    Labels
                    No labels
                    No labels
                    Projects
                    No projects
                      Milestone
                      No milestone
                      Relationships
                      None yet
                      Development
                      No branches or pull requests
                      Issue actions
                      
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default");
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

                      Skip to content
                      MCP servers configured via CLI not discovered by CodePilot #42
                      Closed
                      Closed
                      MCP servers configured via CLI not discovered by CodePilot#42
                      Description
                      @gy212
                      gy212
                      opened on Feb 9, 2026
                      Bug Description
                      CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
                      Environment: Windows 11
                      Steps to Reproduce
                      1. Configure MCP servers via Claude Code CLI:
                      2. Verify servers are connected in CLI:
                      3. Open CodePilot, navigate to Extensions page
                      4. Expected: See reactbits and shadcn servers listed
                      5. Actual: Shows "No MCP servers configured"
                      Root Cause
                      Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
                      Evidence:
                      • claude mcp list → shows 2 servers, both Connected
                      • claude mcp get reactbits → Scope: User config
                      • ~/.claude/settings.json → no mcpServers field present
                      • Searching entire ~/.claude/ directory → no file contains mcpServers
                      Impact
                      • Extensions page always shows empty
                      • MCP tools are not available during chat sessions
                      • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
                      Proposed Fix
                      1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
                      2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
                      3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
                      4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
                      Metadata
                      Metadata
                      Assignees
                      No one assigned
                        Labels
                        No labels
                        No labels
                        Projects
                        No projects
                          Milestone
                          No milestone
                          Relationships
                          None yet
                          Development
                          No branches or pull requests
                          Issue actions
                          
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers");
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

                          Skip to content
                          MCP servers configured via CLI not discovered by CodePilot #42
                          Closed
                          Closed
                          MCP servers configured via CLI not discovered by CodePilot#42
                          Description
                          @gy212
                          gy212
                          opened on Feb 9, 2026
                          Bug Description
                          CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
                          Environment: Windows 11
                          Steps to Reproduce
                          1. Configure MCP servers via Claude Code CLI:
                          2. Verify servers are connected in CLI:
                          3. Open CodePilot, navigate to Extensions page
                          4. Expected: See reactbits and shadcn servers listed
                          5. Actual: Shows "No MCP servers configured"
                          Root Cause
                          Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
                          Evidence:
                          • claude mcp list → shows 2 servers, both Connected
                          • claude mcp get reactbits → Scope: User config
                          • ~/.claude/settings.json → no mcpServers field present
                          • Searching entire ~/.claude/ directory → no file contains mcpServers
                          Impact
                          • Extensions page always shows empty
                          • MCP tools are not available during chat sessions
                          • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
                          Proposed Fix
                          1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
                          2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
                          3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
                          4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
                          Metadata
                          Metadata
                          Assignees
                          No one assigned
                            Labels
                            No labels
                            No labels
                            Projects
                            No projects
                              Milestone
                              No milestone
                              Relationships
                              None yet
                              Development
                              No branches or pull requests
                              Issue actions
                              
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode");
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();

                              Skip to content
                              MCP servers configured via CLI not discovered by CodePilot #42
                              Closed
                              Closed
                              MCP servers configured via CLI not discovered by CodePilot#42
                              Description
                              @gy212
                              gy212
                              opened on Feb 9, 2026
                              Bug Description
                              CodePilot's Extensions page shows "No MCP servers configured" even when MCP servers are properly configured and connected via .
                              Environment: Windows 11
                              Steps to Reproduce
                              1. Configure MCP servers via Claude Code CLI:
                              2. Verify servers are connected in CLI:
                              3. Open CodePilot, navigate to Extensions page
                              4. Expected: See reactbits and shadcn servers listed
                              5. Actual: Shows "No MCP servers configured"
                              Root Cause
                              Claude Code CLI (newer versions) stores MCP server configurations in an internal location that is not the mcpServers field in ~/.claude/settings.json. CodePilot's MCP API route (/api/plugins/mcp) only reads from settings.json, so it cannot find any CLI-configured servers.
                              Evidence:
                              • claude mcp list → shows 2 servers, both Connected
                              • claude mcp get reactbits → Scope: User config
                              • ~/.claude/settings.json → no mcpServers field present
                              • Searching entire ~/.claude/ directory → no file contains mcpServers
                              Impact
                              • Extensions page always shows empty
                              • MCP tools are not available during chat sessions
                              • Users who configure MCP servers via the recommended CLI workflow cannot use them in CodePilot
                              Proposed Fix
                              1. Add CLI discovery: Call claude mcp list to discover configured servers, parse the output, and cache results (60s TTL)
                              2. Merge sources: Combine CLI-discovered servers with settings.json and .mcp.json configs (project > user > CLI priority)
                              3. Pass to chat: Forward merged MCP config to streamClaude() so tools are available in conversations
                              4. Protect settings: Change settings PUT handler to merge instead of overwrite, preventing CLI configs from being lost
                              Metadata
                              Metadata
                              Assignees
                              No one assigned
                                Labels
                                No labels
                                No labels
                                Projects
                                No projects
                                  Milestone
                                  No milestone
                                  Relationships
                                  None yet
                                  Development
                                  No branches or pull requests
                                  Issue actions