Use the standard Atlassian User Interface objects
I would suggest you to resort exclusively to the AUI objects for your interface instead of your custom ones that clearly gives the impression that you are exiting the Jira world to step into another one.
I think you user would deserve a smoother user experience, with the same kind of buttons, icons, tables to which they are already used to. I'm especially talking about the transformation/filters features that should be improved in that direction to my mind. Thanks for you great achievement!
please see the comment
Thank you for your suggestion. Let me assure you that we're very much aware of AUI components and Atlassian Design Guidelines. However, that is what they are -- the guidelines. They provide the best practices and we're trying to follow them when appropriate.
Implementing everything exclusively with AUI components would have been wonderful, if it was possible. It would've saved us a lot of time! But the components allow only some 80% of the required behavior -- the things that Atlassian UX developers had thought of and had time to implement. Restricting ourselves by that means removing certain features or making the whole UI even more bulky.
But I appreciate your concerns. You mentioned transformation features. Is there something in there in particular that that stands out or annoys you? We can look into improving a certain part.