i think its pretty much every game. examples are gyruss, galaga, afterburner, galaxians, pacman. others like asterix i think also do it but they just arent as critical so i dont notice it as much. incidentally, asterix runs something over 200% unthrottled and is actually heaps of fun to play that way!
it certainly does seem like it is some sort of background issue. this is happening even if im not running it through a front end- just using mame32, and nothing else obvious running. looking in task manager, system idle definitely is using the most resource at 97 or so %. although just looking at it now i noticed that spysweeper did some funny little thing. i only just thought of it now. hmmm, ill turn it off and report back!