The files location depends on .inf content.They have to have a specific folder layout or the wont install, see my comment at win-raid.
Driver Genius Pro puts all the files into 1 folder, you then get 2 inf files and each one may be telling the system to look in 2 different locations for the .sys file. I backup my drivers from the Driver Repository folder now and so far they have the correct structure with the amd inf file.The files location depends on .inf content.