Made some decent progress tonight. Both wheels laced and trued, and the cases marked for porting.
I'm going to have to remove a lot of material to open up the additional side case ports. Currently the pw/qt cases block one entire half of each cylinder port. I may even have to add in material to the corners from the back side to give me some extra material to cut away, it feel like it gets pretty thin there from the inside. It seems as if I can just ream these cylinder stud hole out about 1.5mm or so and it will slide right on so I think I keep it simple and go that route for now.