My notes.
1- The game starts with a quote which says "It is no nation we inhabit, but a language. Make no mistake; our native tongue is our true fatherland.". Logically, from a story-point perspective, that means either Big Boss knows that, and therefore his plans can't involve simply making a "nation", or it's a sign his intentions are wrong. Or it's just a misused quote.
2- We hear someone breathing through a respiratory device (presumably, whoever is in a coma), and we hear sirens. The sirens are those of
British fire trucks. the same we hear them later when escaping the hospital, yet we hear them now while someone is breathing through a respiratory device.
3- We then fade to Outer Heaven, where a battle is ongoing. V has the tape and listens to it. The game starts, we see through the eyes of the person in the coma.
4- After V freaks out from the 9 year thing and wakes up again three days later, on the radio it speaks of a crash and an inexplicable fire. It's very difficult to hear exactly what is being said, eventually the doctor turns off the radio, probably foreshadowing Mantis/Volgin being on the way,
but I wouldn't be surprised if it's describing the hospital/tunnel/etc burning down before those events even happen! If someone could provide some sort of transcript I'd be grateful. Bonus; I'd be curious to know what the doc is telling the nurse when V wakes up again after two weeks
5- One thing I need help figuring out: the doc shows V a mirror, and we see BB's face as expected. After he pulls it away, we see the face of the character your created right? He says "We have to change your appearance immediately, we have no other choice, what you look like however...", what does he mean by the later? Isn't it the same?
6- Also, a pretty important point: see how little bandage V has there? After, right before being killed, the doc starts removing some bandage and says "Your face has healed nicely. To tell you the truth, these bandages were more for your protection, to hide you from those who want you dead." The doc talks as if V's face had been completely covered in bandages like Ishmael. But his face was not hidden at all, only his eye's bandage was removed... We saw his face just before any bandage was removed already, how was his identity hidden only by covering his eye? Ishmael on the other hand, sure. Maybe it was just poorly thought out, but I don't know...
7- Note that until now, even if V freaks out numerous times, there are never any digital glitches. After you are done with the facial reconstruction choice thing, when Quiet kills the doctor, now we get our first digital glitches, at the same time as the doc tells you what your new name is (name taken from Moby Dick...), and to forget everything. From here on out there are such glitches. There was none in GZ if I'm not mistaken.
8- Ishmael says "I... we gave her a light, she took the way down". We never see HIM start the fire, he was in the same position as before, on the floor with the knife in the shoulder. Someone else did, Mantis?
9- Doesn't Ishmael inject himself in the arm with the shot and not V? It's unclear, nice touch if intentional. On a few occasions we see what Ishmael sees rather than V. It switches back to FPS when it goes back to V.
10- First sight of the orange bars since GZ: when the missiles are fire at Volgin.
11-
When Ishmael aims at Volgin, it's his left eye that is bandaged, and he aims with the right eye.
12- Ocelot says "A certain man asked me to do two things. First, to get you out of that hospital. Second, to rescue the man himself.". Then he talks about Kaz, so we think he meant going to rescue Kaz, but he could been hinting at Ishmael/Big Boss, who he just rescued.
Gotta say, the whole Awakening chapter is amazing, it's perfectly directed. So much tension and confusion, wish the whole game was more like that. If it had been more like MGS3 with Snake on an infiltration mission, I think it would have been able to stay like this throughout.