Earlier quoted context omitted.
This is not meant to sound challenging, I have used and, both loved and loathed, some JIRA setups. A lot of it might be implementation. But as for the question, again not challenging, just curious: What do you suggest as empowering, out-of-the-way, issue tracking software?
I've really liked fogbugz.
My only (but major) gripe I have with FogBugz is that it is stupidly hard to insert inline images in cases (compared to how easy it is in a github issue)..and while at it, the entire editor could use a makeover for ease of use/markdown capability