When installing the rotors (on any vehicle), ensure the mating surfaces are void of dirt, rust, grease... Basically, make sure the surfaces are clean. That's the hub, the rotor, the wheel. Even the most precisely torqued installations will be off if the areas are not clean and flush. Also, follow the torque pattern, but not all at once; rather, increase torque values two to three times, i.e. Pattern to initial contact and set, then 25% of rated torque, then 75%, and then final torque.
Somewhere on this thread, or somewhere else, someone mentioned coming to full/abrupt stops, and then keeping the pads held in the original point of stop. It basically ruins the even coat of break-in material (burnish) of the pad on the rotor. If this occurs, it's best to re-break-in your pads. Best practice is coasting just a hair before coming to complete stops. Make sense?
There's plenty of documentation out there indicating why this is a best-practice for pad/rotor braking... Here's a simple means of burnishing. The best part is that if you've not yet done this, you can always go out and get it done. Better late than never.
http://www.wagnerbrake.com/technical/technical-tips/break-in.html