So here's the deal, in the last second of the game, when your player character is asked his name, he replies "Taylor", then credits roll. Did Taylor take over your mind when you purged your DNI of Corvus? Are you actually Taylor and is this all a dream or a hallucination or simulation inside your mind? Since it lets you restart the campaign with your existing gear I played through the first mission again, and there's lots of hints at things that happen "later". For example, Lt. Khalil, when you rescue him, is touted as the "hero of the uprising in Cairo" which doesn't happen until much later in the game. Later in the game, it appears that your player character is falling for Rachel Kane, a CIA operative you meet, and when you meet her, it is played out like Hendricks doesn't know her. She eventually is killed when Corvus tricks her into entering a sealed chamber which he then fills with a toxic gas. In the first mission however, Hendricks at one point asks Taylor if he's still seeing Rachel, and Taylor replies, after a slight pause, "It didn't work out". First of all, Hendricks, if I remember correctly, didn't know Rachel when "you" meet her in the campaign, and is suspicious of her intentions. When Taylor says that it "didn't work out", is he referring to the fact that she was killed by Corvus? Taylor then asks, referring to you, "You gonna take care of him as good as you did me?" To which Hendricks replies, "That's not funny". Is Taylor referring to the fact that Hendricks is the one who kills him later? It might make sense that the first couple missions of the game are actually the last, chronologically, and that everything after your bloody encounter with the robots is a memory or a simulation inside your mind, except for the fact that in the first few missions, Hendricks doesn't have his augmented body parts, he still has his human arms and legs.
The end result is that I thoroughly enjoyed the campaign, but I'm gonna play through it again to see if I can pick up on any more clues left behind, and I'm still wondering what in the WORLD is going on.