Im glad to hear everything is working well with the new axles and that the lockers work that well too. I want to put lockers and gears in my WJ but I’m not investing any $ into the Dana 35 so that’s on the back burner until I find a Dana 44 to put back there.
I have run a flowmaster with just a turn down by the rear axle and it made it almost a week until I got rid of it. Having a turndown at the rear axle made it excessively loud inside and I just didn’t care for it, but that was on a daily driver. If your not worried about the noise (wranglers are loud anyway) then I can’t see how it would hurt anything. You would probably gain a little ground clearance depending on how it’s run, just don’t expect big horsepower gains from an exhaust (mine wasn’t noticeable).