I dont see a good reason for seperating Girls & Boys at all, it's really the same question as should we have seperate schooling for Girls & Boys which to me is mostly downside and not much upside.
The only justification i can rattle out of my brain is that traditionally that is the way it has been and someone should probably have some good reasons to want it changed.
It would not be at the top of my todo list, but Yes i think utimatly it would make sense to merge them.
But don't girls smell of Poo!