We removed the stock intake manifold today to take measurements. The first pic shows a gasket/template that I will use to make the intake manifold flange. You can tap these holes out with a ballpeen hammer tapping lightly on the edge of each hole. The sharp edge of the casting will cut the hole.
The proximity of the power steering pump on the passenger side and starter motor underneath will require some changes. I will need to run the throttle bodies upside down so that the TPS sensor and secondary throttle plate shaft will have some space to operate in. The airbox will need to be smaller. It is hard to see this ahead of time untill you empty the space you plan to use.
More pics here
http://journals.aol.com/johnstranahanb/RebarrelingandHome-ShopMachining/#Entry1633