If RMS made a choice to use proprietary software, with the only alternative being his dead, there is absolutely no moral conflict, or even anything against his principle. The only issue could only ever arises if he claimed "Free Software is more important than human lives", which I am pretty sure not a claim he, or anyone, has ever made.
It's basically the same principle as if you point a gun to my head and tell me to kill a puppy or get shot (and I'm certain you would shoot me). It's obvious which choice I would make, and I hardly see that as an evidence of my hatred for puppy.