Sounds like the trucker was not real bright- we had a similar situation once and simply tied a strap to one corner of the pallet and pulled it with a pickup until it turned enough to get the pallet jack under it.
As far as all those misaligned holes, soft and rough castings and sheet metal, you would expect that stuff on a 995.00 cheapy mill, but on a " production" model CNC, it sounds pretty disappointing. It sounds like the Smithy model is a hasty catch up to the Tormach design. Somehow the Tormach guys have their machine built at the same factory that builds the high end Smithy Granite series, while Smithy builds their version at the factory that produces their cheapy Midas machines. Tormach must have come up with this design and out flanked Smithy in getting an exclusive at the ISO9001 factory and Smithy is now scrambling to compete with one built at a regular state run place.