Before you machine the rotors, remove the wheels and check the rotors to see if there's an image of the pad on it. It sounds crazy but the same thing happened to me and I was told that some disc pads will leach the bonding material onto the rotor if they aren't burnished properly when new. The car sits for awhile, the rotor gets a stickey spot, when the brakes are applied they grab that spot harder than the rest and it feels like a warp! If you drive your car often the pad doesn't get a chance to leach.
If you have a spot on your rotor, just go over it with emory paper of fine sand paper,rough it real good, both sides, spray it with Bra-kleen and it should go away. It's worth a try, it worked for me.