Windows "through Bootcamp" are no different than any other Windows. Ever since Apple switched to Intel, they are using regular hardware and their machines are no different than other PCs. Bootcamp is just a piece of software that makes the process of installing Windows on a Mac easy (helps you with partitioning, provides a driver pack, etc.).
After you actually install Windows, Bootcamp doesnt matter, which means Autopatcher will work just like it would on any other machine.
I have used it on most of my boxes and I am pretty satisfied.