Atlassian currently does not support applying SSL certificates to a Jira server.
This scares me a little, because it seems like such an obvious and critical core function of any web platform.
I understand that you can't support every platform, every CA, every form of certificate.
But my ten-year-old PBX allows me to paste some cert text into a couple of boxes and I've got SSL encryption.
I look at the features available in the admin interface, and I just can't understand why this is the thing that's too hard to achieve.
Is this a Java thing? It seems like other Java-based platforms have a similar attitude towards SSL, like it's an unimportant afterthought.