Thank you for the extensive reply. You are already doing a great job. And I mean that. You might have guessed that already by my replies. The last scene is where, in my very humble opinion , you struggle a bit.
"In the final level, the player powers down the force fields and the defense systems that prevent it from 'crossing the wall' to meet other humans (hopefully, if any exist, as he has heard). Upon that, the machine (not knowing that the player is actually a cyborg(part human, part machine) asks why did he not connect to the force fields as he is a prototype of advanced generation of plug and is programmed to power its defenses only. (the previous generations of plugs being fully mechanical unable to move and easily destroyed as seen in the game) ... The player's reply implies that he is not a robot that will merely carry out a task he is programmed to do, and is a human that seeks connection with other humans. "
This and again, in my very humble opinion, needs work to get through to the player with less and/or a different text. I do not see the present design/exposure of the scene as fully transparent or with a more logical flow in order what you want to transmit to the player.
I hope that I could help you some with what I've said, when you develop your game further :)