I notice a height variation between some of the ports. Like #1 and #8 are higher. I highly doubt that's just a fluke, so what's the reasoning behind this?
The reason for the height difference is all geometry. The four outboard runners are all the same, just rotated or mirrored in different directions. Looking at the front of the manifold, the #1 intake runner enters the plenum a little higher than the #5 runner. That is because the #1 cylinder is farther away from the plenum than the #5 cylinder, so the #5 runner hasn't risen quite as much as #1 when it hits the plenum.
I thought about trying to equalize the height, but then the runners themselves wouldn't have quite the same shape and trajectory. I felt that was more important than making the runner entry the same height into the plenum, because there is enough meat in the plenum to allow someone to port the runner entry up a little if that was desired. The fact that the manifold splits in half makes it easy to do porting work, and I figured that everyone has their own thoughts on the best way to shape that area, so I left it as is.