I gave her the last dose of Panacur a few days ago and it seems to have helped somewhat? Sometimes I do still see a tiny amount of blood and sometimes I don't. I think I'll watch her stool for another couple feedings and then talk to my vet again if nothing improves. They recommended possibly doing a fecal culture or ultrasound if the Panacur treatment didn't work, so I might end up going ahead with that.
As for her respiratory issues I'm not really sure what to do about them. I was originally going to take her in for a culture to see if it was anything bacteria related, but the sounds I'm hearing are more like an occasional whistle than the wheezing and popping I normally hear about, and every time I check her mouth for excess saliva it looks normal to me. I guess I just don't know if there will be anything to find, and I don't want to put her through another vet visit if I don't have to.