Our organ player, last year was diagnosed with tennis elbow, carpel tunnel, something like that. For a few weeks she didn't play but we needed her so, to play without having too much pain she had to take the pedals and bench out of the organ and just use a regular chair. Ofcourse her elevation was lower and when she played she had to reach up and use the upper manual and it looked rather silly, but it did help her play comfortably. That went on for about 4 or 5 months and the problem eventually went away.

I sincerely doubt I'm using the correct positioning as part as my fingers are concerned, I'm probably sitting to close to the keyboard too but its what I'm used to and its not easy to change something I'm used to. So I suspect I'll eventually suffer from the same problem in the future.