Maybe this is completely dumb and impractical, but could there be a way to remove the seats from the plane, individually or in groups, maybe on a track (overhead?) like a roller coaster, so that there could be a large boarding area with plenty of room for people to get situated. Then once everyone is in their seat, the seats would roll and lock into position.
This would also allow you to quickly deplane, but have the next group of passengers already seated, ready to slide into the plane.
The boarding problem is human, and also spacial. And you can't really get rid of the humans, but you could change the space.
Freight transport has been containerized, how can we do it to passenger transport?