Thanks again Amphiprion, I will work on this. I was just a little worried about the anemone wanting to get up and move, he has just recently came out from behind the rocks. I have tried to work the lr in a way that gives me water movement, is it possible that maybe I have too much rock?The pictures do indeed indicate cyanobacteria. If it seems to be occurring in areas with lower flow, then detritus settling could be acting as a substrate-source of nutrients for them to grow. Try manually removing the patches and then increasing flow to see if that helps.