Hi HubrisSonic, Johannes here (the guy who listed Indie Box One on IndieGoGo).
Obviously you are right that there are plenty of processors that are faster than Atom, and that's what you might want for certain applications. On the other hand, a lot of people are concerned about electrical power consumption, and in my experience, there's a big difference in power consumption between this Atom configuration and something faster. (I run both at home.) So we picked one particular configuration for this campaign -- if you don't like it (and you apparently are a geek, otherwise you'd hardly have an opinion on relative performance) -- you can pick the "bring your own hardware option" and turn a badass server of your choice into your Indie Box. This project is not very much about the hardware, but making it possible to run apps at home, which is mostly a systems administration time/skill set problem.
@tengobotas: congratulations if you can do that with your RPi. Most people can't, which is why we offer a ready-to-use SDCard for the RPi, and of course a fully-configured dual-disk system, so you won't lose your valuable data because your SDCard dies or your USB cable comes lose.