On PC version:
I have a level 80ish Crusader and this character has none of the below issues. Just wanted to mention him for completeness...also he was my first max level character if that helps with troubleshooting.
I have a level 80ish Psyker and he has an exclamation point over Capt Van Wynter like I should be able to start a dialog but she just opens her inventory.
I have a level 80ish Assassin, has the same issues (exclamation point) over Capt Van Wynter and also one over Metrodora Thelema. When I talk to Metrodora she goes through dialog regarding the status of Caius Thorn. After the dialog is over the exclamation point is still above Metrodora's head and she no longer interacts with my character. I can't change innoculator choices.