Indoor SWCG Pool, cloudy/ green

[waterbear]

Why would you add CYA to an indoor pool?

My question too! If you could post a complete set of results it would be helpful. The fact that it went cloudy and then cleared kinda indicates algae or organics in the water. The leaves are a puzzle but that tells me that someone is letting stuff get into the pool that shouldn't!
How many hours pump run time and what percentage on the Aquatrol and what is the salt level and temp of the water?
Well water might or might not be a problem. Test the fill water and post the results.
Green water and iron bits in the pool? Perhaps blue vinyl liner and yellow water from the iron is causing the green color since it appeared after the clorine output on the generator was bumped up.
Don't think the cover would have much impact, short of preventing some outgassing, in an indoor pool.