I have been working out some pain in my shoulder in physical therapy (which I highly recommend). So now I've been reflecting on the aches and pains I have had over the years, and as it turns out, I can blame most of them on the organ:
1. Shoulder pain: I spend hours each day folded forward into myself, arms extended. That makes the chest strong and the back weak. Solutions: stretch the chest and shoulders regularly, and buy (and use) a rowing machine. Problem solved.
2. I had a bout with tendonitis in my right hand in grad school. Can't imagine why. I was only practicing many hours a day and playing Sundays on a three-manual tracker. And to make financial ends meet, I was entering ten-key data in an office. That uses the right hand. Gee, imagine the potential for pain. Solutions: rest that hand! Carry everything in the other hand. Move things, push buttons, write, open doors, and brush teeth with the other hand. Rest. Aleve. And then take a close look at manual technique and quiet it down in a big way. Pain and suffering were the catalyst through which I honed a rather quiet yet effective manual technique. I'm proud of the result, even if the process was no fun.
3. Bach Trio Sonatas make the inner thighs sore. They'll get over it.
4. Widor makes everything sore.
5. When a foot rests lazily on its side on the pedalboard, it can start to fatigue.
6. Every now and then, I encounter expression shoes that are set too low, which when fully closed stretch the Achilles too much.
7. <insert your own here>
8. Finally, I myself can be an occupational hazard for a tyrannical clergyman or a clueless secretary. But that can make the tendonitis flare up again if I punch them too hard.