Hey, Willow here again. I had the same thing with my two successful crops and the roots were actually growing down the drain pipe. It forms a mat in the tray. I did raise the baskets to let the flow get through and I actually cut away some of the root, not too much, and then I took a long handled spoon and used the handle part to push the roots away from the drain and the water input. That worked for me but there maybe a better way. I was told that it is normal for that root mass. Maybe someone else will offer suggestions that we both can use.