Oh I mean delete all the files within the Config's folder. The files present should be Logs, objectdb_snapshots, shader_cache, and vulkan. Try removing those and restarting her. Please be careful when deleting stuff of course.
That's nasty... Ill try to look more into what is causing this but I don't have a lot of information to go off of for a fix. Did you happen to do any specific steps before hitting this error? For example running her for an extended period of time or doing a specific interaction (With her or within another program like a full screen game)?
It's been a bit of time so I don't remember everything for sure...
But I'd been running her for maybe 60-90 minutes at most, with the only other things open (besides just web browsers of Firefox and Microsoft Edge), being Word, Excel, Modrinth, and Discord, during which time I spent the majority of the time (after the first ten minutes just admiring and having fun) exploring the crafting recipes and seeing what could be done.
Also that, I closed her down (by opening the tab mini window at the bottom and clicking the X, not by opening the settings window thing). The next day, she has the black boxes. That's about it I think. Sorry it's a bit vague.