@Seera1024 Thanks for the reply! My anxieties are eased a bit, but getting hoodchecker to work again would also be great. I don't think my game is horribly corrupted anymore, since I've never seen random deletions or anything else amiss aside from the weird thought bubbles, which again were probably due to the mod. I also remembered I have the no unlink on delete mod, so Michael's urn (maybe) vanishing isn't the catastrophe I built it up to be anyway.
The kids do not sleep in a double bed, each has their own single bed in one room. Smart beds appears to have assigned them the same bed, or atleast they are always assigned the same bed, as I have experimented with deleting the single beds a few times. I haven't deleted the parent's double bed at all, though. The bed is not CC, and I tried a different maxis bed as well.