This same issue happened to me on another mission, they just stood there. It's a glitch when they think not every enemy is killed and you can still make your threat meter go up by firing shots in a certain area of the map (specific). All you can do is quit out, and re-do the mission and it will work. Its annoying but its not a big set back. Infact when I re-did it I found stuff I didn't the first time.
Edit: I know you said you restarted twice but I think that's all you can do. Maybe try different tactics? Thats what I did, I stayed around the guys to protect them and killed the enemies from there instead of running off on my own.