It might be "warped rotors" due to incorrect wheel nut tightening but, more likely, it's the cronic problem C5 rotors, esp. base rotors, have with metallurgy and heat cycling. if retightening the wheel nuts, per the service manual, does not solve the problem; the only permanent fix is to buy premium brake rotors. A premium rotor is one that uses iron with a high silicone content and is heat-treated during manufacture. There are almost no OE rotors like that. The latest info I have on that issue, which cooincidentally came in an interview with the Baer people last week, is that certain Porsches and, maybe, the new generation Viper, use heat-treated rotors.
A good choice in premium rotors is the Baer Eradispeed-S. In many cases their cost is only slightly more than OE and in some cases might even be less. For more money, you can get Eradispeed rotors that are cross-drilled or grooved, but know that with today's brake pad materials, cross-drilling or grooving is strictly cosmetic and does nothing for brake performance.