It’s very neat that you can run Inkscape on the Pi, and I’ve added a link to your Instructable to our wiki.
However, the Pi is indeed an external computer– a full featured, tiny and cheap computer– that communicates to the EBB through USB.
It is possible to run the Eggbot itself in stand-alone mode by reprogramming the EiBotBoard to store the drawings and run them on its own. To do so is a bit more involved, and so we haven’t done much with this capability in quite a long time.
If you do want to drill holes in the Eggbot chassis, you should take extreme care when doing so, because the chassis is made of fiberglass; drilling fiberglass will produce dust that you don’t want to breath.
