I don't know that I have coherent thoughts to share, but I can ramble for a bit I guess. Good lord did things start getting shitty in Route C. Even though Ending A didn't actually explain anything, I liked that it was reasonably positive. That all went to hell quickly though, haha. I liked 2B's body armor, and it was fun being a consummate badass again after going through the game as 9S.
The no more humans was a bit of a drag, if only because I really wanted to see what their base on the moon was like and such. But I get the very Yoko Taro-ness of the masters of both sides being long dead. And the connection to the first Nier made sense there. The connections started getting more overt than I was expecting, actually. Seeing the Library in the tower, all the Gestalt reports, of course Devola and Popola. (And to be clear, those weren't the ones from Nier, but the two who screwed up that these two were being persecuted over WERE, right?)
I expected the connections to be more easter-egg-y and vague than that, so that's cool.
The virus stuff was shitty, especially wiping out Pascal's village...was that really necessary? I played A2's bits before 9S', and as he was turning into a rage monster, when I had to go over to Pascal's as him I was afraid they were going to make it that HE gave them the virus. I'm glad it wasn't that, at least.
The tandem boss fight was fun, and the final ending was, at least, pretty adorable. With your pods coming to care about the characters and rebuilding the two so they can be together at least. And that ending credits thing was cute, with the messages from around the world. I actually did pretty well! But I did finally get help towards the end, but I got a lot further than I anticipated at the start.
A couple questions that are just off the top of my head - so, in Ending D, the Machines launch themselves into space. But they don't show that in Ending E, so did that still happen? Or did A2 just wreck the tower and the machine network is destroyed?
Another - so the backdoor built into the Bunker so that YorHa would be wiped out before they learned the truth and spread it to other androids. But...was that simply scheduled to happen at the appropriate time (as in, when it looked like the androids were about to win?) Or was it just counted on that the machines would find it?
I'm assuming we don't know how long 2B has been repeatedly killing 9S when he got to clever? Who started YorHa anyway, were the humans still around? Or was it just some androids figured out the truth and were remarkably plan-oriented?
That's all I have for now I think, but I'll come back if I think of more