Issue with Faugus

I've been using Faugus for quite some time now for running several windows applications and games and I've been really impressed.
Yesterday when I launched Faugus all the installed programs had just vanished, I had not hidden them (I only realised you could hide a program yesterday while trying to research why they had disappeared)
All the installed programs are still in the Faugus directory and I've been able to add them back into the launcher successfully all but one game BNet/Diablo 2 Resurrected. I can get it to run but all my saved characters have gone even though they are in the saved game directory. I do keep a copy.
Going to delete the game directory and reinstall BNet but just wanted to know if anyone else had come across a similar issue with Faugus.
Cheers.