A little late in this post but I did the same thing. I seperated my shoulder in a water tubbing accident and had a couple of seperations post accident. I underwent surgery to repair some pretty good damage to my rotatorcuff as well as remove some debris from inside my shoulder.
That was 4 years ago and I've had no problems since the surgery and just got a waiver for the surgery. All I had to do was submit the surgeon's report as well as a signed letter stating what happened, how I went through PT, and how I have no problems and feel my shoulder is at 100%.
You shouldn't have any problems on your medical.