Ouch, sorry to hear about the troubles Justin. I'm sort of there with you, I spent this entire past weekend installing a remote starter on my S sedan and I have issues but not nearly as bad as you. Our boat is a little different... there is no chip in the keys for a base sedan so no bypass module needed, instead I had to deal with other things like fabricating my own neutral safety switch (manual transmission) and doing clutch bypass relay for remote starting.
Most of my install was actually successful, although I am not getting a signal on the injector wire I hooked to for tach-mode remote starting. I won't hijack your thread about that I'll ask elsewhere, kinda get the feeling there are not that many gurus on this site who are able to help us though
My big booboo was that I thought the airbag release holes in the steering wheel were screw holes for the shroud around the ignition and steering column, so I rooted around in there ended up partially dislodging my airbag. Now it wont go back in and I have a flashing airbag light. No other lights or issues luckily, the remote starter actually works in tachless mode and everything so I made it most of the way there but now I'm probably going to have to take it to the dealer to see what I screwed up on that airbag... I suspect I bent one of the clips holding it in... blarg.
Anways most of that blah blah was just to say you are not alone in suffering and having things not go well on remote start install. They are tough. This is my 4th install so by now I was thinking I almost got the hang of it but I screwed up and now this airbag thing is probably going to cost me dearly.
You tried disconnecting the battery for about 10 minutes, right? If the fuses are good and disconnecting the battery doesn't help... yikes. I suspect both of us will be at our local dealerships soon groveling for help, and man the techs really hate people like us...