Depending on which factory stereo you have, you might want to use the front door speaker signal instead. I have an `07 with the REC Nav unit and Infinity speakers. When I installed my MTX box I used the rear door signal at first, but it turns out they limit deep bass to the rear door speakers (to keep people from blowing them up I guess). The front door speakers are 6x9 woofers (no mids or tweeters) and are supposed to be the main bass speakers in the system. Once I re-wired to them, the bass was MUCH improved. Still, the system limits very deep bass even to the fronts when you turn up the volume. The only way around that is to replace the factory system, although MTX makes a module that supposedly compensates for the factory's eq curve to restore deep bass at loud levels.
Overall, I like the MTX box. I tested it in a friend's truck with an aftermarket system and it ROCKED. It rocks in my truck too, but as long as the factory system in in there it won't perform up to its potential (and neither will any other sub).