For some reason it's just hitting me about the rabbit hutch. Are there rabbits in it? If so, do the chickens have access to the droppings? (Did I ask this before? I'm sorry if I did.)
One thing is the mildew. If it's possible that the birds got into some mildew, moldy feed, or something similar it could be that while the original fungus is gone from the premises, that there might be still some in their systems. Treating to help reduce fungal issues in their system is about like the aftercare of coccidiosis or any time you use antibiotics: probiotics (with a twist - see below), and particularly for fungal rists - OACV (organic apple cider vinegar). However, if there was at all a risk of fungus/mildewed anything that could be ingested, you'd also want to treat as if there's a minor oil vitamin deficiency (A, D, E) and treat for a light selenium deficiency. For selenium you can use a combination vitamin E and selenium oil capsule for people that has around 400-700 IU of vitamin E and less than 50 MICROgrams of selenium. Micrograms are listed as "ug" not "mg". You'll have to read the label. You cut the end of the capsule with a knife or scissors and put a few drops right into the beak of the bird for an adult. A couple of drops for younger birds. I'd also consider using PolyViSol vitamins 2 drops in the beak daily for a week. These Enfamil baby vitamins should not be iron fortified (there are 2 formulas) and can be found in the vitamin section of grocers. I found mine in
Walmart - my grocery store didn't have the non-iron.
This treatment can be useful for any ill bird with any neurological symptoms or any chance of fungus toxins. Vitamin E also has effects against E. coli.
Additionally, do use yogurt or another probiotic daily for a week as you would after any digestive issue or during stress of any kind. Only if you're using a -mycin or -cycline drug, then don't use yogurt - use an acidophilis capsule/tablet or Probios dispersible probiotic powder from the feedstore, or a poultry probiotic like First State Vet sells. All your birds should get this as multiple cases are happening. Same with the vitamins. For flock treatment, you can use the vitamin/mineral supplement made for poultry and then use the polyvisol and vitamin E selenium for any lethargic birds spot treating.
Another thing I'd recommend would be to use the organic apple cider vinegar in their water. If you use vitamins, alternate days. Two days vitamins, one day oacv in the water. 1 teaspoon per gallon of water. Unfiltered has the good bacteria you want in it, and the prebiotics to help feed the probiotics. It also is said to help cleanse the liver (which can sometimes be effected if there is some exposure to the toxins of fungi) and is known to help adjust the pH of the gut to be friendly for GOOD bacteria and unfriendly to pathogens such as bad bacteria and fungus.
So a summary - without other symptoms occuring and with the known mildew in the area:
Treat all birds with vitamins in their water daily for a week.
Spot treat all effected birds with polyvisol and additional vitamin E/selenium for 7 days. Reevaluate with us then.
Treat all birds with probiotics x 7 days. Do every other day for a week thereafter.
Recommended: treat the water every other day with organic apple cider vinegar for 2 weeks. First week: alternate with the vitamins til the 7 day reevaluation period. (You can continue with the enzymes, which do the same thing minus the good bacteria, after the 2 weeks so you can still use it.
I don't think you're doing anything wrong. I think that there's still something going on either yet undetected, or this possible issue still not quite complete. So maybe this will help. And in the mean time, really really look for any symptom you can find at all - anything that doesn't fit the picture.
/hugs