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We had exactly the same issue as this; trying to use Jenkins would destroy the session and start a new one.
We had a configuration where all the Atlassian services were behind an apache reverse proxy via mod_proxy, and Jenkins was running on another server, not behind a reverse proxy.
We did not configure trusted proxies, so all the Atlassian services were using the loopback address (0:0:0:0:0:0:0:1) to validate the session instead of the client IP address, while Jenkins was using the client IP to validate the session.
Once we added 127.0.0.1 and 0:0:0:0:0:0:0:1 to the trusted proxies list in Crowd, we no longer saw this issue.