This Gen flex fuel motor has software that calculates the alcohol in the ECM based on data from the o2 sensors. They do not have a sensor for alcohol like the earlier Gen did.
Pretty much any 5.3L Gen 3, 07-14 full size SUV motor will work as long as it’s running your current, higher rated injectors rated to run e85. The 2015+ motors with direct injection will not work.
Personally I’d replace the 5.3 with an 10-13 L86 6.0L iron block / aluminum head motor without AFM from a 3/4 or 1T truck. An all aluminum LY6 6.0L with AFM from a 10-13 hybrid is also a sweet drop in motor.
You’ll only be messing with the tune if you get a non AFM motor to switch it off or add an all aluminum 6.0L LFA from a 09 hybrid that did not run e85. Not 100% sure if LFA would need a tune though.