1. I think this game is intended to be a half dystopian, half apocalypse type game. There's many things that suggest that the world previously was in some kind of war, and it leads to the world crumbling (as mentioned when you first met Cassie in the warehouse)
I have some theories but mainly one. (Warning, this may or may not hint at the ending of the game)
Our character is a bio-weapon. But instead of us being complete, we became, I think abandoned? Or at the very least unneeded. Maybe because the war ended sooner than our existence being in complete form. It's kind of scary to think about since... We were once an experiment dedicated on creating a perfect war-machine. A being that follows the organization.