During the end of the mission in which you choose your morality it let me make the choice and warp but it brought me back to the mission. I could control the camera and the tactical hud as well as get to the menu. It wouldn't let me exit even after I selected it but let me go through the options and tutorials. Now when I log back in I cant press R2 to pull up the notifications. There is no longer a quest at the Martyr location. It's only the campaign that's been affected. 

psn: rushingnothing 

character: Svimix Crusader