Ok, I'm kinda an idiot.
I disconnected my alarm system thinking it was causing a problem, and now I can't get it back together. I (partially by accident) removed some wires from a plastic molding that plug into the alarm unit...and I don't' know the order to replace them! The holes on the plastic are numbered and the colored wires are of different lengths...but I have no idea how they should be arranged. See below:
Above is the alarm unit under the passenger side kick plate.
Above is the ~14 wires that connect to the top part.
Above is the plastic piece the wires fit into before they are plugged into the unit.
If anyone has a manual that has this information, I'd really appreciate it if you posted it. If worse comes to absolute worst, I suppose I could hire someone to take pics of their own car so I can follow it. What a stupid mistake I made!