We had one of the official PCB milling systems for a while, on indefinite loan from another company. It was such a PITA to use that we gave it back.
We do have a nice little Sherline mill
ftp://jjlarkin.lmi.net/Sherline.JPG
which is great for small panels, machined aluminum gadgets, and we also use it with a swivel blade to cut front-panel label outlines. But we don't use it for making PC boards. Commercial plated-through boards used to be expensive, but they're cheap nowadays.
Why flip those poor bugs upside down, with their tiny feet waving in the air? That's cruel. Just bend out any non-grounded pins and solder any grounded and nc pins directly to the copperclad. That way you don't have to count the pins backwards.
John