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Hey guys, I tried downgrading everything and same exact thing. HOWEVER!
I put -Dorg.jenkinsci.plugins.gitclient.Git.useCLI=true into my JAVA_OPTS and restarted Tomcat to force the git client NOT to use JGit, and it worked!
The issue must have to do with how JGit gets the SSH/shell session. It must not be looking in the right ~/.ssh folder.
I hope this helps you guys too.