So the guy who hired Fury and gave Fury orders is Hydra, but S.H.I.E.L.D. isn't?
I don't think he hired Fury, but I'd have to watch the movie to make sure. I seem to recall Fury asking him to take the job he has now, not vice versa.
Garrett could probably shoot like that too, he taught Ward, didn't he? Plus, why would writers show him without the rifle? To leave us to assume after he shot his pistol, he ran back to the rifle, then ran to the side to get a side angled shot before Buddy was out of sight?
Yeah, there was the pistol scene where he trained him how to shoot, but Garrett also mentioned Ward's shooting talent in the prison-break scene. Anyway, I think the scene was deliberately ambiguous. If Ward had the rifle, it wouldn't have been ambiguous. Likewise, if they had shown Garrett with the gun, it would have been the same.
Again, though, Ward did not choose the situation. Fitz and Simmons chose to lock themselves inside. Ward tried to get them to come out, but he was unable to get to them. Dumping the cargo pod was the only way he had available of even trying to kill them. So it does not remotely prove that he wanted them to live. It proves that the writers want them to live -- that's all.
While I tend to think that's the better explanation, I also think it was a bit ambiguous. After all, he could have waited them out if he couldn't kill them then.