DO WHAT I SAY. STEP BY STEP. IT WILL WORK FINE.
Unplug the battery. Leave it sitting for a couple of minutes. While that is happening turn your lights on and off. Pump the brakes. Plug the battery back in. Hook it up to jumper cables/jumper pack/charger. YOU ARE NOT GETTING ENOUGH VOLTAGE FROM THE BATTERY TO THE ECM. DO THIS AND IT WILL WORK.
I got this information from one of the best tuners who works with SCT. It has nothing to do with the tune or the tuner. The ECM goes into failsafe mode to protect it from getting a half tune and the power going low. Like unplugging a flashdrive while trying to download something to it.
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