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If you're looking to make it native with offline support, there's one feature that I think would get you a ton of traction among developers. Use a git/mercurial branch as the underlying storage mechanism. Being able to clone a repo and get the full issue tracking history would be pretty cool and a storage mechanism with offline and built-in audit tracking is a non-trivial part of the problem, so using something that's as proven as the major DVCSs are would help make solving that issue easier.

But more importantly, it's a hook. It's what would differentiate you from other issue trackers. It's distributed issue tracking that allows you to take advantage of all the infrastructure that's been built up around the underlying DVCSs. Right off the bat, you have a reason for your project to exist.

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