The larger ships can't dock but use mooring points. So we are only allowed to "dock" on planet and some big structures, or we can still access most bases? I found it quite unclear.
As far as I know, every base also has mooring points, they're just incorporated into the base itself rather than being a seperate structure. The seperate structure was probably just needed on planets because of big ships getting stuck in the ring.
There's just a handful of 'atmospheric' points that are unavailable to large ships, which at this point I think is just Tomioka and the Pittsburg back door.
That being said, leaving certain stations can be problematic for larger craft. Opening up the chat window and typing /stuck when stuck will usually clear things up for the few stations that have that issue. But given that you can dock a luxury liner at the Hawaii, almost anything is possible.