I have two small tanks and in one tank I had Ocellaris and Green Chromis. I put the Ocellaris Clownfish in another tank and ever since that, the Green Chromis won't come out because it's scared of the fact that I might catch it or just scared because some fish disappeared... It didn't come out for a week until I got Tomato Clownfish. Ever since I got Tomatos, they are out of the rocks but still a little aware of me. I'm assuming they are out more now because the tomatos are out and helps the Green Chromis feel safer. It could be that you did something to scare them big time if they used to be out before.
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