Funny I never thought about single-sex education as being related to differences in male and female brain function.  I see it as a way to counteract societal stereotypes.  I'm not saying I'm a fan of single sex ed but can understand why some people might make this choice.  I went to an all female high school and a co-ed university, the biggest difference I observed was how the sexes were treated by certain faculty.  
In high school, we only had girls so girls could/had to do everything.  We were socialized to take on leadership positions, play sports, receive academic awards, etc.  No one treated our gender as a barrier.     
As a computer science undergrad at an Ivy, I felt that gender did play a role with some faculty.  I took a lot of math and some upper level engineering courses related to digital electronics.  In the engineering classes in particular, I noticed female students were not called on by the all-male faculty.   In group assignments, females weren't given the "hard engineering" roles but were assigned by one professor as "facilitators" or the "systems" person.  During a group review, I remember the professor being shocked when I found a software error for a group of male students.  Granted, this was about 25 years ago now.  At the time,  my female engineering-major friends said that this happened all of the time.