Amps Going into protection Mode

I've read about 15 reviews on this amp and almost all of them mentioned the amp overheating. You can purchase Bazookas cooling system but I would just get one amp that can handle both of your premeir subs like the Rockford Power 1000bd. This amp bridged in 2 ohms would output 500 watts to each of your subs. This is a really good amp that is underated. I think it would push your subs alot better. Just wire your subs to the mono output of the Power 1000bd like this :

Heres a link to Crutchfield which has prices that are usually the same or better then your local dealer. http://www.crutchfield.com/cgi-bin/S-Zj5lqu5APCX/ProdView.asp?s=0&c=3&g=130&I=5751001BD&o=m&a=0&cc=01&avf=N

OK, an amp going into protection mode probably has nothing to do with the power to the amp, unless it is going too low.  If you are staying around 13 volts, your power supply is probably fine.

First check your subs.  Swap the connections so the amps are powering the opposite sub and see if the problem moves.  If it does, there is something wrong with your sub or your speaker wire.  You say you are daisy-chaining the second amp off the output from the first one, and it is the second that is shutting down?  Make sure the RCA cable from the first amp to the second one is OK and connected properly. 

You say you have a cap for each amp, but the way you say you have them connected is strange.  It should be the + on the cap to the + (main power from the battery) on the amp, and the - on the cap to ground.  The amplifier ground can be the same location as the cap, but a different location is often cleaner.