Compare to toilet paper production... Your family perhaps consumes 100 rolls of toilet paper per year, and perhaps 0.1 cars per year (typical lifetime of a car is ~20 years).
So there is 1000x the benefit to any time saving by automation on the toilet paper production line than on the car production line.
Interesting that they don't show engine manufacturing at all. That's been automated since the early 1950s.
There are only a few problems that would lead to a scrap job - for instance if the body of the car is damaged to the point that they would have to cut and weld new panels, that vehicle would be scrapped.
But even for scrapped vehicles, all of the components are removed to re-build that vehicle.
Basically anything besides serious body damage can be repaired. But you are correct that it is hard to fix problems. Most parts are added in one minute or less - including the engine assembly! But it takes much, much longer than one minute to remove an engine.