My jaw clicks on the right hand side. I put it down to a hang gliding accident which resulted in a heavy blow to the left hand front of my jaw and knocked my teeth out of line. If I open my mouth more than about 1 1/4" I get a loud click in my right ear. It is possible the 'problem' was there before, of course, but I hadn't noticed it.
The only problem was when I had a job for a year that I hated (early 90s, not a lot of jobs to be had). I had an almost permanent ache in the joint which I put down to stress. Since then its not been a problem.
I'm sure mentioned it to my AME for my class 2 medical, but he didn't show any particular interest.