I put myself in the GOG beta branch, so this could be something that the latest beta patch introduced.  However, I have no frame of reference because I had not reached this stage of the quest until today.

 

I am doing the The Lighted Path quest.  I rather readily found Bosc's ship, boarded, took out the upper-deck crew then went down and managed to talk Bearn out of suicide.  My quest updated to take Bearn to Hasongo.  That was fine, but I wanted to take care of a few bounty quests nearby before making the journey, and I did so.

 

Back in the Deadfire Archipelago map, I see a stationary Bosc's ship where I had previously boarded and rescued Bearn.  If I board it, I am treated to what I presume happens if I took too long and everyone, Bearne included, committed suicide. Going below decks reveals the deceased Bearne (despite me rescuing him earlier) and completes the quest.

 

This is not game-breaking, obviously, because I was able to reload from before I boarded the ship again and I was able to finish the quest in Hasongo (and the abandoned Bosc ship did disappear after that), but it is clearly not as intended.

Greetings,

 

And thank you for bringing this issue to our attention We'll add this to our date-base for our Developers to investigate further.

 

Cheers.