Remote Start on a 2004 Hyundai Santa Fe

So I have done a couple of these things now, but today was different. I started the POS and wanted to see if the factory fob would lock/unlock the doors. I knew they wouldn't but just wanted to make sure. The vehicle will not arm and lock the doors with the key in the ignition. The car sees the key in the ignition and realizes why would you want to lock the doors with the key in the ignition. When the car is remote started there is no key in the ignition, and will arm/lock and disarm/unlock the doors no problem. Word...