Haha first time taking it apart?
The harness should tuck(technically) in the nose, under the headlamps but above the bottom of the nose...the blue/orange clips should stick out on either side for the turn signals.
And as for the mirror bolts, you broke your stock mirrors..and I'm assuming you bought aftermarket and that's why you have two sets? So use which ever fit.haha don't make it harder on yourself, my stock bolts work fine with the tiny mirrors I have on right now..and they look different than both the kinds you have in the pics. Like I said, use which fit and make sure they're tight
"Do or Do not, There is no Try"