You'd have to use one of the emuNAND tools out there to extract your emuNAND first, then inject your emuNAND backup to your new SD card.hey sgt. lulz just wanna say i finally got cfw working on my 2ds and some cias installed finally thanks alot for all the help and the tutorial you have provided me and others keep up the awesome work..
btw i got one quick question if i wanted to buy a bigger sd card could i just transfer all the files and folders on my current sd over onto the new one or would i have to go through the whole process again??
After that you'd just have to move all your files over to the new card and you're set to go.
I think Multi emuNAND creator can fix the FAT partition tables on its own without having to run the new card thorugh EmuNAND9.