You guys are just getting me to wondering about more and more stuff

In my very simple system(s) that I have been experimenting with, I "think" I might be experiencing the benefits of what Phil has found in that link. Most of what is in that link is over my head, but the jist seems to be that what they call biofloc is beneficial(?). When my system builds up with what I will call "mulm" by Cecil's description, the water seems to stabilize, tilapia are happy. Then it eventually builds up so much it starts plugging lines, etc, and I clean it. However, I try to just clean sparingly because if it's done to much, the whole water stability goes crazy for a while and takes some time to settle back in. When Cecil says he cleans his off daily, that caught my attention and wonder what I am doing wrong.
When cleaning sparingly, I have always thought I was getting rid of "good bacteria" and this was the problem. Could it be that this substance(mulm or biofloc?.. one and the same?) may be what is really helping things stabilize for me?