Actually I was suggesting that as long as a piece of perf board fit over the headers on the real physical board matches the layout on my pcb in Fritzing its probably fine as is (you may want to add a note to the Readme that the pcb view may not be exact to warn folks to check if they need it). I suspect relatively few people will want the pcb view, and my version keeps Fritzing happy and thus is probably close enough. Like you I usually use only breadboard and schematic views to document one of projects so don't often do much on pcb.
Peter