I was just out checking the hives. One is doing fine. They've started filling up the supers with honey. They had started late since I hadn't realized the bees were reluctant to go through the queen excluder. After being away on vacation for 4 weeks I noticed there had been no progress on the supers, so I removed the queen excluder on both hives for a few days. The one hive had started to fill out the frames, so I put the excluder back on last week and now they're fine. The other hive, however after 2 weeks has done nothing.
I checked today to see if I could put the excluder back on. After finding no new comb, I removed the supers and checked the top hive body. All the frames were filled with honey. I think the hive may have swarmed again at some point (the same thing happened earlier in the summer) and there is no new queen yet. Then I did find some old brood in the single plastic frame I had in that box. I started inspecting it and found some problems. First I saw a few dead uncapped larvae. I removed a few with a twig. One was white and sac-like but the other few looked mostly normal. I also saw a grub popping it's head out of a cell then disappearing and coming out of another one. I caught it after a while. I think it was a wax moth larvae, but it was the only one I saw. Also, I saw quite a few mites on that one frame.
Some bees were trying to emerge from the cells and a few were coming out backwards. All the bees I pulled out had deformed wings, short, rounded abdomens, and seemed quite weak.
What should I do with this hive? Right now I have both supers off (they were empty anyway) and I removed the frame full of deformed bees. Should I leave the frame out of the hive and put in a spare one? Also, should I treat for varroa mites now or wait until the end of the season. I don't know how long it will be until there is a new laying queen, so will there be any point in putting the supers back? I'm not worried about not having honey from that hive since it's only the first year.