ok so here is the deal. You waited for sexing before you took a clone, therefore the plant had already gone into flowering for a little bit.

when you grow a from seed youll notice the first leaves are one, the next set three, the next five, the next seven. Different leave formation is normal when plants are just starting to vegetate(aka growing seedlings).
You cloned a flowering plant, stressed it and confused it into thinking its starting its veg cycle over again. It thinks its just popping out of the ground so its growing, one leave, then three, then five. If you keep on vegging your plant the next sets of leaves should look better and after a while it will look normal.