Well it looks like all the parts have faults.
V1.0 is dead because the produced Gerber is wrong and the holes are too big. Basically it's obsolete and should be discarded.
V2.0 isn't perfect because it doesn't link when placed on a BB, and the connectors are hollow instead of red centre in PCB view, and SCH pins should also be red.
The V2.0 will work, and the only difference between 2 - V2.0s parts is the BB svgs. As I quick fix I can put the v1.0 BB svg into a new part to made from a v2.0, which will still have the other faults, and call it male below, but it will be exactly the same as male above in PCB view because they all use the same svg. In my opinion just use male above, as the PCB views are exactly the same.