Yeah I know. That pretty much happens in all the other views.
The parts in BB view are dimensionally accurate engineering drawings where as the BB view are representative, so accurate positions might not be the same.
I suggest you Print Screen and have the pic open next to it as a reference..
I just though, you could get a via in PCB view and resize it to a prefboard connector, press copy, and the CTRL+D 100 times, and then drag them to each intersection to make a prefboard in PCB.