I contacted MT-card with my problems on not being able to play Pokémon on 1.2.
Their response:
So if anyone else has the same issues it should be fixed in the upcoming version :).
I'm having this issue with MT-card version 1.2.
I could launch Pokemon X/Y when I first put it on the card and the saving worked.
But now I suddenly can't play it. It shows up with a "blank icon" when selected in the 3DS menu and not even removing the game from the card and putting it back...
My problem seems similiar.
All games (Animal Crossing included) but Pokemon works great for me.
In one of 10 reboots into emunand I can actually select and play Pokemon. The rest of the time the "game icon" is displayed as blank.
When using the "Select game" in the MT-card menu Pokemon is...