My subwoofer is silent in analog stereo mode. How do I make it kick?

I don't have that amp, but I know my way around electronics and it really sounds like you have your sub hooked up to the wrong pre-out. It should not ever sound bandpass, and it should always work, even in stereo mode. Check your wires again.

MMMM.........I really wish I were looking right at it in order to help. Any how Those amp jack plugs you mentioned may not have to be hooked up. What I'm getting at is just use one set of amp jacks......taht might solve your head ache.....which one to use........I really really wish I were looking at it to be any real help. Never the less try this, find out by trial and eirr and see which amp jacks go souly to your woofers in the rear......remember each set of jacks has two plugs, those two shood lead from the back of the deck to the amp input, make sure your remote wire also runs from deck to amp, make sure your amp has good ground, and good power. Check all of your fuses and connections............I know you wouldn't have any sound if any of this wasn't hooked up in the first place........but what I cant figure out is, why do you or why would you want to try and run analog when you already have dolby digital? So in hine sight even if your running multipal speakers and bridges and amps, simply try the text book way of jacking the amp for the main sub. Honestly if your trying to amp up your 6x9 or 5x1/2's it's a true waste when all you need is a compititon deck in the first place, one with significant power, Thats my whole big opinion with out being able to see ever thing..........ewwww I might have yet another solution make sure all of your wires that run from deck to amp even your power from under the hood aren't all on one side of the car......This will in fact cause problems in frequency so as a rule of thumb try to have power on either the driver side and your remote on passenger side along with amp jacks.....that could be your delema dude sorry I wrote a ton of crap you already knew.....