Ah, after reading what I wrote I see what you thought. There's no ordering in FF. As long as they're in the starting line up you're fine. You could have AP in a flex position and Tashard Choice as your #1 RB if that's the line up you want. Won't make a difference in points.
I do this in fantasy baseball. Everyone knows I have Pujols but I also have Konerko. I throw Konerko in my 1B spot and bury Pujols in the flex spot. Two people have called me cussing me out because they thought I made a mistake.