They presumably all died in the first wave of the invasion. The Replicants lasted a couple millennia longer, until at least the first contact with aliens. The last few entries given in supplementary materials for the original NieR included the final generation of humanity dying out, since the only person who could maintain the Shades/Gestalts from going crazy and dying kinda got stabbed to death. The most obvious twist ever if you played the original game, which was about an angry dad going on a rampage that ruined everything in the process. If you want to look at it, I wonВ’t stop you. All the details are stored on this memory chip. Humans were already extinct when the aliens attacked. The only thing there is a small bit of data relating to the human genome. Any transmissions received from the moon are just dummy signals we set up in advance. In truth, humans never went to the moon at all. We installed the Council of HumanityВ’s server on the surface of the moon. So did YoRHa actually create the Council of Humanity? But IВ’d always heard it was the other way around. I found records stating that the Council of Humanity was established as part of Project YoRHa. ThatВ’s what I wanted to speak with you about, Commander. You left quite a trail when you accessed the main server. Does this have something to do with that time we hacked into classified data without permission.? Dang. We donВ’t even have to go far to link up with the Commander as sheВ’s just hanging out in the hallway looking somewhat cross with 9S. As soon as we head back towards the elevator, the Commander decides to give us a call. We provided support to 2B and actually managed to complete all objectives without screwing up spectacularly or getting owned.

But why.?ДЄlert: 2B has defeated the Goliath-class heavy-weapon unit. Those were the words I heard in the moon server. Part 100: Episode XCVII: Glory to Mankind Episode XCVII: Glory to Mankind

Nier automata fortress of lies