I've noticed this for a couple months now. Anytime there's a bounty or progress of something else, the Skorn you fight in the Fanatic's room [u][b]do not count towards any bounty progress[/b].[/u]
Good example is this week's Weekly of "Kill 150 Skorn" - Should be able to clear that easy with the strike maybe once. Nope.
Another I just noticed literally minutes ago was the other Weekly "Get Void Kills". I used Void subclass, void weapons. Walked into the room with 115 on my bounty, and my counter stayed at 115 at the end of the fight. I used tether, my void sword, void auto rifle, and no progress.
Please look into this.
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This is intended. This is to prevent farming in the final room.