turn the bass boost on the deck off, and then turn the bass and treble to 0. Get a cd that you are familiar with and put it in with the gain on the amp at 0, bass boost on it off, lpf on. Now turn the deck up to about 2/3 - 3/4 full volume so that the rest of the speakers are loud and just at the point of starting to distort. Now start to adj the gain up slowly until the sub starts to play and just barely starts to distort, and then back off of it a scosche.
Bass boost is often little more then a distortion button so use it sparingly, sometimes it is ok but most of the time it does more harm then good.
I just got your pm, there is only one way to hook up that speaeker, you can't really do it wrong.