Please report it here:
http://www.gamesas.com/topic/1544248-bug-report-index-pc/
It is probably intentional. Fallout: New Vegas introduced that "feature." They probably want to prevent you from using the console to get the achievements. Unfortunately for me, I like hiding the menus when I take screenshots. I missed several New Vegas achievements before I discovered it. Controlling players seems more Obsidian's style; I didn't think Bethesda would follow suit.
Except In Fo4 it isn't meant to. Lots of people use the console and still get achievs, myself included.