There are supposed to be 3 pins missing (pins 9, 19, and 20). I believe you may be confusing these pins with pins 5, 6, and 16.
Check out this diagram
http://ww2.justanswer.com/uploads/wmarti7/2010-08-20_104005_94_mustang7.gif
As for the fan, it sounds like you have checked a lot of things and...