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I asked the vet about patching/covering/sewing shut, and he said that while the eye is still discharging, I shouldn't cover it with anything. He said once the discharge stops, I can cover it, or bring them in and he will sew them shut.
I have been using oxytetracycline with them (both systemically and directly in the eyes-this is what BioMycin, LA200, and Terramycin all contain), and it's not working.
Excenel is a different antibiotic (usually used for pnuemonia), I gave the first shots last night. Vet said give it a week and if it doesn't start clearing up, I need to bring them back to try something else.
The two with really bad pinkeye have been in my shed, in the dark for two weeks. No dust, no wind, no sunlight. And their eyes are like white marbles. Looks like there's no "real" eye left. They aren't just cloudy, they are SOLID WHITE.