Here once I can get one to work :-). This is much more screwed up than I first thought. I replaced the pcb svg completely and it looks like breadboard is managing to carry a translate over in to pcb with the result the connector is still too small, even though the svg is now a modified version (to change the silk scrren) of the PI 3. I'll continue beating on it, it may be that I need to redo breadboard and schematic as well to get it to work.
Peter