Earlier quoted context omitted.
Yah, we're fighting this too. We have back and forth with various devs on our team - some use github, we all have to use Tracker. Just curious as to what you think Github could do to fix this. I have a list of wishes and I'm always curious what other people have.
We are using https://www.zenhub.com/
* ZenHub - Agile GitHub Project Management Software || https://www.zenhub.com/
GitHub + Marker for bugs.
* Marker - Visual Feedback & Bug Reporting Tools for Web Professionals || https://getmarker.io/
GitHub + Unito + Asana even... for clients to get some pretty dashboards without getting bogged down... this works great too.
* Unito - Connect your project management tools and become your team's collaboration hero || https://unito.io/
I love how many things play nice with GitHub now.