Apple Remote Works, but only on some applications

I ran into this problem recently where my Apple remote would not work with iTunes or any other application of the sort. It would however open Boxee if you pressed the Menu button. I followed the recommended steps of verifying your remote was transmitting an IR signal and all that, and I knew it was because Boxee would open.

This afternoon I removed Boxee and hit menu, FrontRow opened, as it should have, and then I tried it on iTunes and it was successful. I’m not entirely sure what caused the problem, but I didn’t use Boxee enough to bother keeping it on the machine anyway.