Hey man thats freaky, I drove a 99 malibu and after some jackhole ran a red light I ended up in my Grand Prix. (Doesnt bother me it is a way better car!!
) Anywho about the radio, it sounds like you are planning on using external amps to power your interiors (Much better idea trust me). If this is the case, then you do not need to worry about any factory amplifier. I do not think that the SE comes with any factory amplifier, but which system do you have? Is it the Bose? Regardless, if you are not sure then when you wire the harness to the radio, be sure to leave out the amplifier turn on lead (the blue or blue and white wire) when you make the connections. DO NOT CONNECT this wire to the factory harness, instead connect it to the aftermarket amplifiers. If you do this, then the factory amp will never even turn on saving a little energy and more importantly cutting down on the heat. If you have any more questions let me know I would be glad to help out. One more thing the harness for the malibu and the GP is the same GM 21 pin plug, but the install kit to make the whole thing fit in the dash may be different. I know the one I had for my malibu did not work in the 2003 GP. I was ticked because I had to use one of those GM kits that sticks out of the dash about a half inch. My kenwood mask would look so much cooler if it was perfectly flush with the dash. Good luck man!