DWest, you didn't mention if you have the 'special' program or not. You should with the DDUFM. Either get it reflashed to a special or get a fueling only box.
As for the cruise control, mine started doing this with the injector install and has gotten worse with each upgrade. It works fine with the trailer hooked up, cause the load doesn't allow the speed to increase as fast as empty. From what I understand, the ECM is trying to add enough fuel to accelerate the truck in stock form. Once the performance mods are in place, that same throttle position will add a bunch more fuel creating the surging and jerking. Not a problem as much as a side effect of the BOMBs. Mine is a lot less quirky with the Comp turned off.