Installing doors

Yes. Those bolts have the small washers. The outer bolts have the large washers where the hinge holes are square. This is to cover the weatherstrip material the factory installe to weatherproof the interior of the car. It can be a dab of spray foam or seam ealer.
Attach the hinges to the body first. Behind the kick panels.
Then attach the doors to the hinges.
Did you paint the hinges yet ?