Well then I guess it comes down to what you bought. Without knowing the make/model of the remote start system you have, I can only speculate. Typically, as far as alarms go, an aftermarket alarm requires the factory alarm to be disabled, otherwise the 2 systems will interfere with each other. Remote start systems (without alarm function) are usually stand-alone, and don't affect the factory alarm. As far as I can recall, if you were to sit in your car and lock the doors with your key fob (activating the factory alarm) you could then put the key in the ignition and start the car without pissing off the factory alarm. Any remote start kit would only need to bypass the PATS system to fire up the car. PATS and the factory alarm shouldn't have anything to do with each other. So, yes, you shouldn't have an issue with a stand-alone remote start and the factory alarm. The only thing that I would find irritating is carrying 2 fobs around, one for remote start and another to lock/unlock the doors. This is why I prefer to piece together the factory remote starts (if applicable) or use a plug 'n play method that uses the existing fob.