The brown algae should be a temporary thing. I got a lot in the beginning, my tank is about 6 months now and there hasn't been any for a couple of months. However, it didn't go away until I added my snails. They ate all the brown algae and it never came back! It did take a couple weeks for the snails to eat all of it. Also, the snails weren't added until there was no ammonia, nitrites, or nitrates (I don't know how far you are into your set-up.)