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Can you please try a SNAPSHOT build https://jenkins.ci.cloudbees.com/job/plugins/job/git-client-plugin/33/org.jenkins-ci.plugins$git-client/artifact/org.jenkins-ci.plugins/git-client/1.0.5-SNAPSHOT/git-client-1.0.5-SNAPSHOT.hpi ?
I've included an attempt to fix this issue, configuring JGit to retry after deletion failure (up to 10 times, with a 100ms delay) - my assumption is that, on windows, file may be locked (maybe by antivirus, or other system process) as JVM tries to delete it. This delay+retry should then be a valid workaround. Let me know