Do you think it looks like this?
https://www.thepoultrysite.com/publications/egg-quality-handbook/22/pinholes
How often have you actually seen this? Is it always right in the top? How thick is the shell when you crack them?
The Egg Quality Handbook is pretty much written for commercial egg producers, that's why some of that stuff is written that way. Don't read too much into that.
The fat end of the egg is the first part that comes out when it is laid and the hen raises up a bit when she lays it. Not a lot, but up some. If it were a relatively rare occurrence I might suggest it is hitting something as it falls. But not if it is a regular occurrence. Maybe check the nest for nails or screws sticking out. That is not a pimple from excess calcium being knocked off. The shell looks like it is still there, just bent down, and the membrane is not broken, so you don't have an egg eater.
The hens walk on the eggs when they get on and off the nest. Especially if the shell is thin that could be a puncture from a toenail. It does look like it could have been pecked, maybe to move the egg around. I've seen a hen peck an egg before when she is trying to move it under her.
I'm not sure what is going on.