Generally, and except for specific continuous-filtering or continuous-cultivating versions, algae scrubbers require the algae to be removed ("harvested") periodically from the scrubber. This removal of algae has the effect of removing undesired nutrients from the water because the algae used the nutrients in order to grow. The algae is generally removed either:
*Every 7 to 21 days, or 
*When it is black, or 
*When it fills up the scrubber, or 
*When it starts letting go, or
*When nutrients start to rise in the water.
For waterfall versions, the screen is removed from the pipe and cleaned in a sink with running water. The pipe is removed also, and the slot is cleaned with a toothbrush, to remove any algae that have grown up into it. After the algae are removed, the screen and pipe are put back in the scrubber. For upflow versions, the cleaning method depends on the type:
Glass-attached version: The magnet portion outside the glass is removed, and the inside portion is lifted out of the water. If the growth is thick green hair algae, then it is just removed by hand. If the growth is thin green hair (as occurs in freshwater) or dark slime, then the inside unit is taken to the sink and cleaned with a toothbrush. After cleaning, the inside and outside parts are put back into place on the glass.
Floating-surface version: If the growth is thick green hair algae then it is just removed by hand by lifting the LED lid up and pulling the growth out. If the growth is thin green hair or dark slime, then the floating portion is taken to the sink and cleaned with a toothbrush.
Drop-in version: The entire unit is lifted out of the water, and the lid is removed. If the growth is thick green hair algae then it is just removed by hand. If the growth is thin green hair or dark slime, then the whole unit is taken to the sink and cleaned with a toothbrush.
If the screen is not cleaned like this periodically, the algae will get too thick and block light and flow from reaching the "roots" of the algae, and these areas will die and let go, putting nutrients back into the water.