Its awesome to finally have something in there. I looked through your thread last night haha. I am hoping to upgrade my lights as well. Is your Biocube the Oceanic branded one?
You mentioned your flow being low. One thing I did on mine was upgrade my return pump to the MJ1200 by Cobalt. I think it helped alot. I also fill my tank up above the max line on the side and made a mark on the inside so I can watch the water level.
I got the inTank media basket and refugium for the back section of mine. I believe they make a set for your tank as well. Mediabaskets.com is his site.
How are you liking the skimmer? I havent decided on adding one yet. I was worried about its size.