I love kojima, but i think many fans try to put every decision of his as some grand scheme , especially in a game like MGS V, where the development of the game made it impossible to be finished and many plot threads and ideas were left unfinished. The story implies some sort of war happening in that area of the game, yet we never see anything other than patrolling units. The world of red dead redemption is hostile, you see people getting attacked by animals, the story of the characters show how harsh the wild west life could be, in mexico there are often civilians being executed by the army, the rebels trying to fight the army, and others.
I think that if kojima wanted to convey this feeling you described, we would notice it much more easily.