Extract from Wikipedia follows and I will not put on a public forum how I remove this - it is too dangerous and you can loose fingers or worse!!! Also note that it can be caused when the pads start to seize and is NOT only caused by keeping your foot on the brake pedal after a heavy brake application so check the pads aren't sticking or pins seized!
Also read here:
Tech Article: Warped Brake Discs
Often uneven pad transfer is confused for disc warping. In reality, the majority of brake discs which are diagnosed as "warped" are actually simply the product of uneven transfer of pad material...........
The third primary mechanism of uneven pad material transfer is known as "pad imprinting." This occurs when the brake pads are heated to the point that the material begins to break-down and transfer to the disc. In a properly broken in brake system (with properly selected pads), this transfer is natural and actually is a major contributor to the braking force generated by the brake pads. However, if the vehicle comes to a stop and the driver continues to apply the brakes, the pads will deposit a layer of material in the shape of the brake pad. This small thickness variation can begin the cycle of uneven pad transfer.
Once the disc has some level of variation in thickness, uneven pad deposition can accelerate, sometimes resulting in changes to the crystal structure of the metal that composes the disc in extreme situations. As the brakes are applied, the pads slide over the varying disc surface. As the pads pass by the thicker section of the disc, they are forced outwards. The foot of the driver applied to the brake pedal naturally resists this change, and thus more force is applied to the pads. The result is that the thicker sections see higher levels of stress. This causes an uneven heating of the surface of the disc, which causes two major issues. As the brake disc heats unevenly it also expands unevenly. The thicker sections of the disc expand more than the thinner sections due to seeing more heat, and thus the difference in thickness is magnified. Also, the uneven distribution of heat results in further uneven transfer of pad material. The result is that the thicker-hotter sections receive even more pad material than the thinner-cooler sections, contributing to a further increase in the variation in the disc's thickness. In extreme situations, this uneven heating can actually cause the crystal structure of the disc material to change. When the hotter sections of the discs reach extremely high temperatures(1200–1300 degrees Fahrenheit), the carbon within the cast iron of the disc will react with the iron molecules to form a carbide known as cementite. This iron carbide is very different from the cast iron the rest of the disc is composed of. It is extremely hard, very brittle, and does not absorb heat well. After cementite is formed, the integrity of the disc is compromised. Even if the disc surface is machined, the cementite within the disc will not wear or absorb heat at the same rate as the cast iron surrounding it, causing the uneven thickness and uneven heating characteristics of the disc to return.