I think we're missing out on this interaction in episode 39
ARCHIVIST: Why are you here Martin?
MARTIN: Well, well, Prentiss is out there and you can’t run so –
ARCHIVIST: I mean at the Archive in general. Why haven’t you quit?
MARTIN: Are you giving me my review now?
ARCHIVIST: No… We’re clearly doing a whole heart-to-heart thing...
Jon asks a question, feeling vulnerable after opening up about something that was scaring him for a long while now, expecting a genuine answer and emotional conversation about Martin's choices and feelings.
Instead he gets Martin thoroughly misunderstanding him twice, once thinking he's literally asking why he's in the room and the second time thinking he's giving him his goddam employee review