I have never had a warped rotor in my life. It's pretty simple if you never have any impacts to the rotor itself. Now I know what you all are referring to is a pulsation or maybe a high frequency ring. I'll try to help you guys understand whats really happening.
Brakes work off of friction. Alot of people think it's friction between the pad and rotor.. It is not. It's actually friction between the brake pad with itself. "Bedding" is the transfer of brake pad material to the rotor surface (this happens with hot brakes). This layer of material on the rotor works with the brake pad to stop the motorcycle/car.
Pulsation begins with an uneven surface on the rotor that acts against the brake lever. This happens from hot brake pads and coming to a stop while standing on the brake. The hot brake pad "stamps" itself on to the rotor surface and now whenever you use the brake you feel the pad passing the stamp. Improper bedding or wear+tear can also create uneven distribution of brake pad material to the rotor. This rarely happens to track bikes.
Taking it easy on the brakes to "break in" is the worst you can do IMO. I am an auto mechanic and before I release a car to a customer I get those pads bedded to the rotor with repeated hard 60-20mph stops. I have never had a warranty issue. Ever.
One way to properly diagnose the problem is to check rotor run out with a dial caliper. You can actually measure the high spot and problem area that way. I actually have a grinding stone that's meant to clean bad bedding and not mark the rotor. This saves money with only the cost of a new set of pads.
Im not entirely blaming people because there is possibility of mechanical error like a stuck piston or slide. I just figured id come in and educate everyone on whats really going on. Mechanics, including myself, rarely take time to explain this issue because it's difficult to explain it may be the customer's fault. Other mechanics just don't know. Hell, break in my hyper was my typical riding. Aggressive. I actually "forgot" the 600 mile motor break in until like 400 miles. oops. I've even cleared up a slight pulsation on a roadstar warrior by doing 120 mph and slamming the front brake a few times then drove slowly around to let cool.