Since the hiscore feature was added into mainline, there's no point in me mantaining a build with MKChamp's patch.
The "nonag" feature was always lame in my opinion. The more familiar you get with the information posted by MAME/Switchres in its info box, the better you get diagnosing video issues. Ideally any competent arcade gamer should know the video modes used by all important systems from the top of his head. This makes it easier to setup your system because you know which specific games (video modes) you need to test. It becomes obvious which users are forcing the "nonag" feature by simply reading their posts.
If you really really need the nonag feature then consider rolling your own build. A light-weight "suppression" patch has been posted.