That probably wouldn't work with the Barra electrical system though, right? I'm pretty sure they changed it with the AU, and probably again with the BA. That sorta thing would be the way to go though, so the stock Jeep body control module can be kept and used with the Ford ECU.
On another note, not particularly to do with the Ford engine, but here's a link of someone who turbocharged the stock 4.0L: