1965 MMP's Barracuda Hemi swap! The Ever Changing Build

I'm using a Bouchillon performance kit with and unlocked 08 Jeep ecu. It's calling for the two wire (start) and (run/start) and I'm guessing its for the same reason my Fitech on my truck needs it. There is an interruption of power between the two keyed positions. I'm guessing the efi system isn't going to work with this interruption and why it needs keyed constant power. !?!