Would you be able to do this with an gbxcart? GBABF just really doesn't seem to work for me, it won't flash anything and says all my cartridges (even an official one)'s ROMs are a bunch of 0s, so I'm wondering if I could inject the save back with gbxcart?
(Sorry for the terrible lighting, hope you can read that, it says it can't detect the cart even when there's very clearly one, the pins are squeaky clean and the game just perfectly well on the NDS)
EDIT : Yeah, GBABF doesn't like me very much, when I dumped my official cartridge and tried to extract the save from your software, it said there wasn't any save, so it seems to dump an empty 16Mb size file.