Originally Posted by Solracer
You relized how hot you have to get the rotor actually warp right? If you improperly torque your lugs you might warp the hub part, but I doubt you could warp the rotor surface just by tighting your lug nuts in-correctly.
I'm just speculating here, but maybe by over-torquing the lugs the hub becomes messed up such that the rotor does not stay lined up with the caliper and under braking sort of moves side-to-side in between the pads, thus causing the vibration.
But anyway like I mentioned earlier, re-bedding the pads is at least worth a shot given that it doesn't cost anything or require any actual work to be done on the car.