The thermocouple on the new assy is standard thermocouple. The new valve should use a standard thermocouple. The AWH reverse threaded TC was a crappy idea in the first place. People would go to remove it and end up breaking the valve from accidentally tightening it. They should have sent you the valve with this new assy. There was a class action lawsuit out against these heaters. That's why they send out a whole new assy and valve to people now. If you add on to the lawsuit, all you can get out of it is $25.
Anyone with these flamelock heaters needs to read their manuals. There's a page there telling you to clean the microscreen filter underneath the heater. That new assy u have w/ the fuse replaces the need for those reverse threaded thermocouples that initially were used on these waterheaters. These heaters were the worst idea ever. Think about if you have this in a smitty pan and the homeowner is an 80 yo widow.
PS - you don't really have a huge selection of waterheaters these days. There's only about 3 companies making them. They just slap on a different skin on their units to sell them through different outlets. If you look at a Rheem from a wholesale house and a GE from Home depot you'll notice they use the exact same shell with the same air intake design. Just as every heater with that rectangular microscreen on the bottom of their heaters is made by the same company. They licensed that fuse w/ the reset button from B&W after the lawsuit. So it really doesn't matter where you get a waterheater, it matters who's design you unwittingly buy into.