Maybe, that really depends on the dealer. You could maybe find a nice dealer who will add it to your vehicle when you bring it in for service. If not, and you have to reflash it, it is only a 5 minute ordeal and not complicated at all once you get in there. Bear in mind that your dealer shouldnt be reflashing your control module if you bring it in for an oil change or tire rotation. Only for software updates and fixes that require adding/removing/changing features in the computer.The only way to register the brake controller with the VIN is to have the dealer do update?
Also, most of the 5 minutes of reflashing will be spent walking to the fridge, getting a beer, opening the beer, and then removing the module after the reflash is done because those little buggers fit tight in the connector.