When I traded my original Jeep (CJ5) I used a standard car trailer and towed it behind a 1/2 ton pickup from Illinois to Arkansas without too many issues, other than it was like hauling a huge brick in the wind. Never used a pro hauler before, and besides, the Jeep was 10' 6" tall from the ground to the top of the roll cage on 38" Swampers; just easier to haul it myself then. I would think a JK with 3.5 inches should be no problem for a pro hauler. Most of the binders they have on the trailers will squat the suspension at least 2" just to ensure the vehicle is tight.
03 TJ 2" BB, Zone Hydro`s, on 33`s (only the beginning)