Yes, I would think that would be a warranty issue. I have 140,000 miles on my stageII and my clutch is just now on its way out. 10,000 miles is ridiculous unless it were a track only car or something like that.
Naturally, you wouldn't want them to know about the AP. They might try and use that as an excuse to not warranty the work. Flash back to stock before you head in.
Good luck, T.J.