i was towing a 44' boat down to florida (not with my fronty of course, i was driving a kenworth. although i have moved a 13500lb 55' boat with my fronty, only moved it about 30' from one end of the shop to the other but thats another story) part way through Illinois i noticed the truck was starting to get a bit of load on it like i was going up hill but at the time i was actually going down hill. i looked down at the electronic trailer brake controller and it was going crazy, i was applying brakes to the trailer for seemingly no reason at all so i pulled over. after a bit of time looking about the trailer i noticed a busted light on the trailer with wires that were touching the frame on the trailer and was messing with the brakes. not quite the same as your situation but a prime example of how a simple short (that for some reason wasn't blowing any fuses... weird) can cause some very strange problems. your harness and trailer wiring would be good place to start looking