TMNT uses a different hardware to run, so, that functions for neogeo won't work never, for instance, MAC hardware (like the boradts) aren't the same as standart PC boards, so some finctions will not work for PC from MAC, tha's the same issue in game hardware, TMNT uses another type or board, RAM, ROMs, protection chips and some other features that are different for neogeo, that's the reason why some configs aren't for TMNT hard.
See ya!!!!