Did you have rotor warpage problems before with this bike, or did you just decide to change the rotors for looks or some other reason? The reason I ask is that some of the wheels on certain CVO models have had manufacturing problems that resulted in the mounting points for the rotors being out of tolerance. In those cases, bolting a new "good" rotor onto an out-of-flat surface would eventually cause the new rotor to warp. Some people have reported having to replace rotors several times before finally having the problem corrected with a wheel replacement.
Anyhow, rotors can be warped right out of the box. I assume you bought them new from a dealer, and if that's the case you will want to let that dealer know ASAP that you have a problem with those rotors. If you run them any length of time, many dealerships will blow you off when you request a service part warranty replacement.
Jerry