This is an addition to the excellent solution above by The 7imekeeper (I used his method perfectly).
To save you replaying the game, his method also works if you load a saved game from just before the mission.
In my situation, I had two glitch. This and the ghost one.
I saved before each mission, and when it didn't pop when I passed the mission I carried on and finished the game normally. I was using the digital version, so had to buy the retail version to do it, but Once finished I followed the above method, except;
Instead of starting a new game, I loaded the save from just before the mission 'The Escape', did it, updated and it popped.
If the Ghost in the Machine also glitched for you , this method will save you five hours of replaying if you remember to make and keep a separate save, as a new game isn't required,