Will it? i use both Bitbucket and Jira at work, and i'm constantly finding myself wondering how two products from the same org can work so poorly together. They use their products to market their other products, but as far as actually integrating things into a seamless experience it doesn't seem like that's atlassian's strength.

In many ways that will be a good thing though, trello will likely remain trello instead of becoming something else to fit atlassian's ecosystem.