Turns out the shuttle docks with it's lower dockingport instead of it's upper. Not sure how to fix that in the sub editor since I don't use it often...

Not sure why or how, but the shuttle decided to spawn in the center of the sub and killed everyone by perpetually sinking it.... (Cool sub though)

Thanks for your efforts. Bot navigation seems to be working properly now. Ran it through the sub editor (quick method) and made the mechanic man guns and repair spots. I look forward to thrashing through the hydrothermal wastes with Jupiter.

the only thing that comes to mind is that you may have started your campaign with an older version of the sub that had those issues, one of the patches rollbacked was a version where the shuttle would be treated as no-stay zones for bots, you can try running it in a fresh campaign or swap out the .sub file in your save to see if it works for you

Not at all. I play mostly single player and don't mess with any of the default wiring out of fear of glitching out.

i wasn't able to replicate that issue, ran it through a couple of missions and bots were able to access the shuttle gun just fine while docked. did you by any chance rewire anything with the buttons on the custom hatch?

i'll see what i can do about that

Not sure if you want good bot pathfinding. But ordering a bot to man the weapons in the shuttle while it is docked with the main sub, will fail to reach their assigned turret getting trapped in front of the door leading to it.