Just try to preform a movable.sed transfer, then use the same Nintendo 3DS folder. Someone else can give you details, since I'm at school.
Hey, I'm back.
Before you start anything, if you bricked your emuNAND by installing a botched system title, like a bad HOME Menu, you can replace it with your working NAND and you should be up and running with the emuNAND. For a bad home menu, you can find and replace this on American consoles by going to CTRNAND > title > 00040030 > 00008f02. If you need another region, just say.
By the way, this is a transfer, so it'll overwrite your current NAND data.
--------
To do a movable.sed transfer, just make a backup of your current used NAND.
Mount your emuNAND on your PC. Navigate to the dbs folder and everything inside it. Make a /dbs folder on your SD Card and put all the files on it.
Then, navigate to the private folder. Copy movable.sed to a /private folder on your SD Card.
After this, launch GodMode9. Go to your SD Card and highlight the dbs and private folders with the L button (they both should be in yellow) then press Y to copy.
If you're using emuNAND
currently, go to emuNAND CTRNAND.
If sysNAND, go to sysNAND CTRNAND.
Do not go into any folders. Press Y to paste, and unlock NAND writing. It should ask to overwrite folders, press Yes.
Then reboot. Take your SD out and put the old Nintendo 3DS folder with your saves on it. When you insert the SD into your 3DS, everything should be back.