You can remove the .niogit directory which contains all the git repositories. That under the /bin/ directory in jboss.. notice that is a hidden directory. If you are using another application server/container the .niogit directory is usually in the same directory where you start the container.
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if you use jbpm-installer then the .niogit folder will be in jbpm-installer folder. I believe if you do ant clean.demo it will remove .niogit folder as well.
I explored /root/niogit folder and it was the was I was looking for, After deleting it jbjm console was emptied.