I don't have enough experience with high dome colored Luxeons and optics to talk about a difference in optical performance between high and low dome, but my experience with low dome colored Luxeons is that they tend to have a lot of "artifacts" in the beam when used with a NX05 optic. Perhaps a McFlood would give a smoother flood.
So far as color goes, I've not seen more variation between the color of a high dome versus a low dome than you would have between any two colored Luxeons of either dome type. There can be significant variation in a given color, though not nearly as bad as you get with "white", and if you are lighting the emitters up side by side, you will sometimes see a difference in hue or shade.