Claude Code - Jira MCP

[Jason Hawsey]

Am I the only one that has to re-authenticate to the Jira MCP multiple times a day? 

In my claude code setup I have the MCP servrer setup as:

"mcpServers": {
"atlassian": {
"type": "sse",
"url": "https://mcp.atlassian.com/v1/sse"
},

...
},

This works great after authenticationg....for about a few hours and then it just stops connecting and I have to reauthenticate.

I did do a search through the community for anybody else having this but I didn't find anything.  BTW this is happening across multiple workstations for me.  Also happens in the Claude desktop app as well.

[Peter Nguyen]

Hi all, we're currently aware of the reliability of the Atlassian MCP server for some users and are currently making steps to resolve it. 

I'll provide an update once we have more details.

Peter.

[Carlos Garcia Navarro]

Hi @Jason Hawsey ,

Welcome to the Community! Have you tried to configure your MCP using Jira API tokens for authorization? If you use Oauth the access tokens expire. 

To create a Jira API token go to:

https://id.atlassian.com/manage-profile/security/api-tokens

To configure your MCP in Claude, I recommend to ask Claude as it can guide you step by step :-) 

Typical MCP Jira configuration structure looks something like this:

json

{
  "mcpServers": {
    "jira": {
      "command": "npx",
      "args": ["-y", "@modelcontextprotocol/server-jira"],
      "env": {
        "JIRA_URL": "https://your-domain.atlassian.net",
        "JIRA_EMAIL": "your-email@example.com",
        "JIRA_API_TOKEN": "your-api-token-here"
      }
    }
  }
}

[Jason Hawsey]

Thanks @Carlos Garcia Navarro.  I did try that just now.  However it wouldn't work and when I used Claude Code to help me fix it here is what I got:

---

⏺ It looks like there's an API compatibility issue with the Jira MCP tool. Let me check what other Jira tools are available and try an alternative approach:

⏺ You're right - the @MCP-devtools/jira package appears to be using an outdated Jira API. However, @modelcontextprotocol/server-jira doesn't exist in npm.

Let me search for the correct official MCP Jira server:

⏺ Web Search("modelcontextprotocol official jira server npm package github 2025")
⎿  Did 1 search in 17s

⏺ Fetch(https://github.com/modelcontextprotocol/servers)
⎿  Received 1.6MB (200 OK)

⏺ The official Atlassian MCP server (which supports both Jira and Confluence) is what you had originally configured. It uses OAuth via SSE (Server-Sent Events) instead of API tokens. Let me restore that configuration:

---

So I got it to help me setup the new one with @modelcontextprotocol/server-jira and when that filed to connect it moved me to @MCP-devtools/jira which appears to be old.  That did connect but it is an outdated API.  It said @modelcontextprotocol/server-jira was not in npm so it couldn't user it.  Thus it moved me back to the oAuth via SSE which is my original unstable connection.

Any ideas?  Thanks again for your help.

[Carlos Garcia Navarro]

Oh, interesting! I'm going to take a closer look later, but in the meantime l'm requesting assistance from the Atlassian Support team, since they can check that message about the outdated API. Thanks!

[Steven Hood]

For what it's worth, I see the same thing.  The Atlassian MCP via SSE is unreliable.  I do use several Claude Code sessions, and they all need to connect, so I thought perhaps that was causing issues, but I can't see why multiple connections would be a problem.

I have considered going back to an Atlassian CLI (go-jira, most likely), which is the pattern I use for Github (via their 'gh' CLI).  It works really well for PRs and comments, so I hope Atlassian can sort this out!

[Carlos Garcia Navarro]

Thanks for sharing, Steven!

[Jason Hawsey]

Thanks both @Steven Hood  and @Carlos Garcia Navarro

Are there not a lot of folks using the SSE MCP?  If there are, are they having a better experience?  Just wondering if we are a couple of outliers.

[Corey Puffalt]

You're not completely alone.  I've had similar issues myself.  They seem sporadic.  To be fair, sometimes I think the issue might be with Claude Code.  Sometimes a request just seems to hang but Claude never times out so it's unclear whether it's a threading/networking bug on Claude's end.  It's also unhelpful about not reporting back anything meaningful for error messages.  

[Jason Hawsey]

Maybe, but if I re-authenticate to Jira MCP, Claude Code will work fine.  So now my workflow is if I stop for more than an hour of work, I just re-authenticate and it never has a problem.  But that is obviously not ideal.