Hmm what are you keeping her on? I'd keep an eye on the humidity and make sure it doesn't get too moist and exacerbate the scale rot and be on generous layers of newsprint (if you aren't already). Some of those symptoms can be caused by bacterial infections, possible nutritional deficiencies and confusingly from both overly moist and overly dry conditions. Quite a constellation of possibilities I know - I would advise to keep an eye on it - put on some antibacterial ointment especially if the scales look like they are suppurating, see how the shed goes but in any case I'd want a vet in on that to make sure she didn't need any serious antibiotics administered. Great job on the feed btw.