The way Subs board boats needs to be re-evaluated; there are two issues I've noticed.
First one is that Subs who aren't on board a boat in time will sometimes walk on air to get on board.
I've seen Subs walk on air across river crossings (about half the distance of the whole trip) to board the boat, but I think that the latest update might have changed something to make this less apparent, as I'm seeing a lot more Subs just vanish from the docks after the boat has left. (I assume they teleported to their party on the boat?)
It could also just be an issue that gets more intense the longer the game stays open.
Second one is one I found while gathering evidence for the first.
It appears some Subs are getting stuck in unmovable terrain if they can't join the boat in time.
In the linked video, there are 3 Subs stuck in Chasm terrain in the water and I believe a Sub is also stuck under the dock itself.
Video:
https://drive.google.com/file/d/1KD7HGR7DnsSTRMjSnKnzyc-UT7Bfen94/view?usp=drive_link