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I have them too, I don't think they are the problem. I had them when my zoas all looked great.
About 1/3 of my colonies are opening and looking good again. All i've done is keep up weekly WCs, clean the mesh bags on my drain lines weekly, and add Phoslock and carbon in a HOB filter. I know my problem is different from yours, mine is this odd sticky cyano that has to be brushed off the polyps as that is the only way i can remove it.
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Great spirits often encounter violent opposition from mediocre minds.
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