Sounds to me like you are having a problem with alternator whine, it's a common problem. Here is what I suggest, I've had problems with both of my Headunits. Ok, first thing to do is get a different set of RCAs and just run them back to the amp, just have them on top of your seats and all. If the sound is still there, go to the amp and slowly unglug the RCAs, if sound goes away, your preouts on your head unit are bad. Also, if you can get them to reach, have someone else's CD player, hook your RCAs to it and see if there's noise. If no noise, once again your head unit is bad. i've had 2 headunits go bad from heat I am pretty sure. I hope this helped.
__________________
Aka 93 Cutty
Working on my next project: A 1986 Honda CRX. Little beater with lots of engine
Car Audio Freak
http://www.sounddomain.com/ride/613185