I am also pondering building a box for it, and this would need access to the ports, as well as providing power to the system. The best option I can think of is using a USB hub to power the Pi, and ALSO to provide a way to extend the USB capabilities of the Pi.
So, my question is: is it safe to do this? Basically, the USB hub would be connected to the mains. The data in cable would be connected to the Pi. One of the “out” ports would be connected to the Pi’s power in socket. See this diagram:

Is this kind of loop-back OK to do? I’d rather have one power lead (USB hub) than two (hub+Pi).
I’d then be able to use something like this:
http://www.amazon.co.uk/LUPO-Port-USB-2 ... 01&sr=1-93
to route USB ports and power to where I’d need it.