Public aquariums use lanthanum chloride for phosphate control. The dosing regimen is discussed here.
http://www.advancedaquarist.com/2007/2/aquarium
The common hobbyist method for Po4 reduction is ferrous oxide media.
http://www.advancedaquarist.com/issues/june2004/review.htm
Another media reactor you may want to consider is a denitrator, such as a sulphur reactor.
http://reefcentral.com/forums/showthread.php?t=1288082
or a carbon source reactor such as NP Biopellets (solid vodka dosing as the kids call it these days).
On the subject of "doubling up on the skimmer size", it usually isn't a good idea, as they are designed for a certain load, so over-sizing generally causes premature bubble popping due to a loss of bubble stability/poor surface tension. In other words, the bubbles pop before they deliver their payload to the collection cup... and trust me, you don't want premature bubble popping before you even get to the collection cup
With regard to lighting, it's one of the easiest, albeit expensive aspects of the system to change as technology evolves. Having said that, you should go with the newest development on the market. The LED industry is tripping over itself as it grows by leaps and bounds. For this reason you may want to consider going with Cree brand LED lamps instead of the Philips product you are looking at, as they have been the industry leader for a few years now.
http://www.cree.com/
Conversely, one of the areas that is almost impossible to correct later down the road while the tank is developing is the flow and respective plumbing. I think you're falling short on some of the flow criteria that must be met (variable flow, detritus suspension, surface skimming, surface ripples etc.). It's hard to tell from the pictures, but it looks like you don't have a wave or surge device of any description. You should invest a few minutes and give Paul at Oceansmotions a call about the drains, return lines and the closed loop. He's the experts, expert when it comes to flow dynamics.
It's good to see you dropped the bio balls. Personally, I don't think that they are as detrimental as some would suggest, but they are superfluous at best. I would rank their merit somewhere between adding a garden gnome or an umbrella holder, with the latter being the wise choice. The idea of using live rock in its place is a lateral move. I would use the space for a larger refugium or - here comes the shameless plug... a benthic/cryptic zone.
http://www.reefcentral.com/forums/showthread.php?t=969713
It's great that you have an open ear to what the RC members have to say. Of course you can't follow everyones advice, but I'm confident that your tank will be a success even if you take a few lefts (usually four) when you should have gone right
The key is to find your system's limiting factors and one by one eliminate the things that can go wrong. Create a modular system that paves the way to new technology and methodology as it evolves with us.