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Even the name of ED's song is Antinomy - a fundamental, apparently unresolvable contradiction. An Antinomic Dual in 2B and 9S.

Sorry, felt like rambling about NieR, it will happen again

And she's left all alone to be crushed by the endless cycle of stopping him from finding out the true nature of Project YoRHa.

Which... then, the whole ED ends with a re-emphasis of the Project being a Black Box of its own, one whose contents no one can be allowed to observe clearly.

Because, ultimately, one of the most significant aspects of Automata *is* that it's a story of suppressed love between them. And just before she reaches him, he disappears; of course, the only way 2B can be free enough to really consider what she feels for him is when he's been executed by her.

In other words, she sees clearly that fulfilling the conditions of her mission means executing 9S. So 2B is unbound from the confines of emotional suppression, and starts running after 9S - who's still blindfolded because he's still operating as a Scanner, gathering data he shouldn't have access to.

Into the both of them in a wheat field, where the blindfold comes off of 2B - being unchained from the limitations of YoRHa. And the first thing she sees is that flying white bird which could be either freedom or a knowing precursor to what 9S' ultimate fate is bound to be.

And the way it transitions out of the shot is with that silent clenched fist from 2B - all of her suppressed emotional damage, the quite literally deteriorating state of her internal personal data from having to play Executioner to someone she ultimately just wants to be able to love and be with.

Of course, they're wearing their blindfolds, which at various points is both *being* blind to the truth and signifies their compliance with making themselves devoid of emotion - or at least trying to be, even as they explore, try to understand, and imitate various aspects of humanity.

It starts with the crystal, which to me seems to represent the YoRHa Project - with the truth needing to be kept under lock and key - while then moving to 2B and 9S draped in the cold, rigid tones of the official regulations they have to adhere to. Prohibited emotions, no opposition to Command.