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Looking in /var/atlassian/application-data/jira/plugins I see this:
[root@cdedev1-iajira plugins]# find . | grep jira_git_plugin
Is it safe to, and should I, remove the 2.5.20 version of the plugin?
1. It's safe to delete plugins from the folders (./installed-plugins and ./.osgi-plugins/) only, when JIRA is stopped.
2. Usually .osgi-plugins is recreated on the start of JIRA, so you can delete ./.osgi-plugins/transformed-plugins fully.
3. Yes, I advise to remove ./installed-plugins/jira_git_plugin-2.5.20.jar.
Rarely we see old version of Git Integration add-on run on JIRA instead of the latest one. A removal of old versions helps.