Ok, makes sense to use MoI for such cuts. In the example below I did the intersection in Blender - which looks either edgy or needs gazillions of polygons.


Hm, on second thought I don't completely understand the explanation from the faq when looking at this concrete demo shape. For this example I cannot select any points at all.
My assumption would have been that I cannot select the vertices e.g. at the place where the boolean subtraction happened. But e.g. at all the blocky corners there should be natural delimiters of the faces?
Also tried with the Blender default cube - there point selection worked, so this thing seems to be an odd boundary case.
But if points can be edited in some cases and in others not - and editing of points is the goal - then it is probably better to do this in Blender in any case.