I haven't played the game for months, but I came back to play the two latest DLC's.  After resting while playing Seeker, Slayer, Survivor content, Pallegina gave me her farewell letter, left the party, and appeared in the middle of the sea on the global map.

 

Picture of her:

https://imgur.com/a/oXVX7rf

 

Is there a way to avoid or fix this??  I'm hoping other players might know more about this than me.

 

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For some background/context: I beat the game a few months ago.  I had offered an alliance to the Royal Deadfire Company, then backed out when they said their plans to assassinate the Onekaza - which causes a 'shootout' which kills a lot of people and deals a blow to the faction.  I allied with the Huana after.

 

Pallegina and Maia didn't have issues (or comments) on this at the time, except that Pallegina understood why I'd side with the Huana. 

 

 

 

 

You're not the only one. I had this issue too, it played out the same way, except I backed Aeldys, Pallegina didn't protest and then after finishing SSS she left. There is a thread in the bug section about this issue, here.

Same bug here as well. 

Thank you!! I'm glad I'm not a weird one-off case, at least.   And thank you for the link!