I have heard they make a bypass harness to take out the OEM amp in the kick panel area on a S197? I have a 2008 Mustang with a sub amp from the EOM shaker 500 system. I installed a 10in sub (800 watts) and a 2ch 400 watt amp for the rear speakers. I have a Kenwood DDX-471 head unit installed and I'm also replacing all the speakers with Infinity 6" x 8" 2-Way Kappa's. My thoughts are doing something with the sub's mounted in the doors. First step would be pulling out the amp.
I think I unplugged that amp when I did my sound system. I left it there, and wires were hanging off of it, but I couldn't see them and they weren't in the way.
I put the 6.5" woofers in my door sub location so I didn't have to worry about them.