TL;DR I tried to copy pkmn moon from one sd to another, larger one and this made the save incompatible. I contacted FAQs and Nintendo directly, they all tell me to delete save. This is not an option.
I have a flashcart and I have loaded in all the cfw from the 3ds guide. I now have my pokemon save on one sd and the cfw stuff on another. I have tried dragging and dropping the files from one card to the other, to no avail. I tried to copy some cfw stuff onto the pokemon sd, to no avail. I downloaded moon onto the cfw card and then moved the old files to it, to no avail.
1) Where does Pokemon Moon store the 'save' on a legally downloaded copy?
2) How do I get this to a new SD where I could export the save?
3) How do I find which save to export in savedatafiler, and where do I then find the exported save?
BONUS) How do I make the save data and device version match to recover the save?