Did you check out my post "01_the beginning"? It contains the full code already, ready to download.
As I unerstood you right you miss the link between the pattern of circles and the actual holes in the surface, right? So here I don´t use GH for the whole way to the complete model. I just did the linework of circles in GH and then took them and cutted them out of the surface with the well known standard tools in rhino. - For that I check "please group" when backing the circles from GH to rhino.