Install Checkpoint, JKSM or Save Data Manager, they will extract and copy your save to your SD.
Open Citra, right-click on the game, "open save file location", copy your saves (respecting the file structure).
For re-importing, do the same, all...
The worst is when its a dry poop, then you spend 20 minutes and ha!f a roll of TP wiping. Its like wiping TP over a magic marker, just won't stop showing.