K couple questions for ya
1)How old is the battery on your car?
2)How many amps do you have and what's the wattage on it(them)?
3)If amps are high wattage, are you using a capacitor?
4)Did you monkey with any of the orange wires off of the radio harness or the Red/Black stock wire on the car side harness?
5)Did you run the remote from the Blue/White Wire on the radio harness?
I'll try to help you figure this out