On a PC, save files are typically found in your Citra "nand" directory, usually under AppData\Roaming\Citra\sdmc\Nintendo 3DS\00000000...\title\00040000\00160c00\data\00000001\ . How to Back Up and Transfer Your Save
For a full cartridge backup, you can use GodMode9 to dump the raw save file directly to the /gm9/out/ folder on your SD card. Clear Save and New Game+ Benefits project x zone 2 save file
If you are moving to a new console or want a safety backup, you have several options: On a PC, save files are typically found
Beating the game and creating a "Clear Save" file is the only way to unlock high-level endgame content. If your 3DS has custom firmware, apps like
If your 3DS has custom firmware, apps like Checkpoint allow you to export decrypted save files to your SD card. These files are typically found in /3ds/Checkpoint/saves/[Game Name]/ .
For retail copies, your progress (levels, items, and story completion) is saved directly onto the Nintendo 3DS Game Card itself.