Thank you~! I backed up my Black and SoulSilver Versions as a test, and it worked beautifully!
Overall, the tool worked wonderfully with my M3DS Real! Well... It worked nicely, I should say. Backing up went off without a hitch and worked on an emulator, then I transferred SS Pokemon to Black. I then went to restore the save to my SS game (so as to retrieve my main team, I'd never switch their game permanently), and it scared me a little. It took 3 tries to get it to work correctly...
First time, after inserting the game it just went back to the menu of the tool (not usable though). Try #2 said it was writing the game, then finished but it didn't really do anything... >> Finally, the third try actually gave me the reading and writing progress bars, and that one worked wonderfully~!
Anyway, thank you for a VERY useful tool~!