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Your Z MAY have rotor warping, but it might also be build-up of pad material on the rotor. I would first be sure the rotor faces and the inner sides of the wheels are clean, and the wheels are torqued correctly. (BTW, if you have not removed the wheels yet and retorqued them, this might be the problem.) Use some emery cloth or sand paper to clean and cross-hatch the rotor faces (you can do the pads too), and then drive the car to check for improvement. :yesnod: :)
The improved Z06 stopping distances are due primarily to the tires, the brakes are the same between C5s and Z06s.
Here's another thing you can do to try to smooth out your rotors: Check out the Tech Tips on http://www.baer.com and "re-season" your rotors. Many times this will burn off the deposits that are on your rotors. May not fix it but won't hurt anything either, if you follow the directions.