I find is a bit odd that people act like I'm not "good enough" for the game, just because I don't feel like investing my limited game time into something with very annoying "bugs". Just because you got used to the bugs, does not mean others feel the need to do the same.
And as a side note, if there is a mission that has you rescue people from a burning station and can't request docking permission, and the developers couldn't be bother to turn off fine during the mission, I'd consider that maybe the devs don't really care that much, as that should be a very easy fix.
Now, if the fine was intentional and actually a part of the mission, it would be fine. Not all mission parameters have to be all amazing.
You can have burning stations where you can't use auto dock (for rather obvious reasons). They are being evacuated, and that's the kind of missions you do there.
You can get a fine, and if you do, you can only dock "anonymously" until they are paid (but no contact there to do so), so you can't evacuate people.
Which is already silly, but note you have random explosion inside the station that can knock your ship around, and trigger a "loitering" fine.
I think it's completely nonsensical in every aspect, but some people defend it for some other nonsensical reason. I think I heard "dystopia universe" being used as an excuse. Whatever...
As for your problem, auto dock is not an "out of the game" feature that work flawlessly. It's an ingame one. And like you should watch your tesla car when it drives, you should also watch the ship.
It's mostly good, but once in a while it's not.