You may want to measure the voltage when the systems on. Amp's will shut off if they don't get enough power.
So you have the subs wired in series? Then paralleled to 4ohms?
Read here if you're unsure how to wire the subs:
http://mobile.jlaudio.com/support_pages.php?page_id=161
Burning smell could be the amp or the subs if played too hard.
There might be a short in the system. You may have a bad ground also. Your amp must be grounded to metal on the chasis of the car. Make sure where you grounded was sanded and touch raw metal. Often vehicles are coated with something to prevent rust.
Other than that I'm out of ideas. If you're nearby one of the sponsors maybe bring it by and we can have a look and help you out.