nSide Balanced Super GameBoy Save Game Issue

When I run a any Gameboy game through nSide Balanced and save the game it creates too files in my save game folder, one of which is a no extension zero byte file. When I load the game it doesn’t see the save. This issue seems to effect all Gameboy games run through nSide Balanced. Any ideas?

Edit

So, it seems the saves will appear if I restart the core but exiting in anyway makes them unreadable. Any ideas? The same games save fine in an actual Gameboy core.