Dealer spun my rotors ("machined" is the proper term) under warranty - they should do the same for you. I'm looking to aftermarket for drilled/slotted rotors as mine are warping again. It's very faint, but I notice a pulsation on long slow stops, meaning the rotors are coming out of line again... yuck. Rather spend a little on better rotors than deal with the dealership again , or drive to the only decent dealership around here (45 minutes) only to get stock rotors put on again.
Check the TSB's as well - you may be able to get them to replace the rotors if they're rusting (do a forum search for details).