What choice and concequence you have? A fucking line of dialoguye on the ending?
Spoiler alert:
V will die unless it turns completely in to Jhonny.
All different things that lead in the same direction. Is a binary choice determined by one dialogue the ending will be different depending on what quest you made but in the end that's the ending for you. You can change a single mission how you go there but that will be still the ending. Nothing will change.
I think you misrepresent the endings here. Yes, V will die. But guess what: the game deals with the question what it actually means to die. And there's your choice and consequence.
Problem is cyberpunk is not that. In cyberpunk "What makes me human?" as a story is completely outdated because everybody don't give a damn. You get cybernetics because is cool. Because it improves you. It makes you better and in some case is also for Fashion. That kind of plot is more fitting for Deus ex that is pre Cyberpunk.
The story of this game isn't the question of "what makes me human". It's the question of dying and immortality. What does imortality comprise of? And this question is very "Cyberpunky".
Is the same thing if you think about it. What makes me immortal? Alt says herself while jhonny think it dosn't change nothing Alt answer: It change everything.
So in the end is the same thing the plot has great moment but falls flat on this. This is a world where you can swap totally your body and replace it with a total syntethic one. Now the situation with the Relic and even the Soulkiller is different as it drains you in to data. But in the end is still "What makes me human?" scenario.
Will the fact i am converted in a stream of data makes me have a soul? Is the same hollywood shit all over again.
So yes while is not spelling it properly is another of those: What makes me human? Cyberpunk games again.
Putting it in terms of "soul" is a bit old-fashioned, but one knows what is meant. It's the p-zombie problem, which is quite a knotty problem in philosophy, no small thing. The story is actually quite profound, for a mainstream game it's introducing quite highfalutin' topics.
Just to recap the philosophical problem: scientists and philosophers have a rough outline as to how the brain makes the body do stuff (move, flap its gums to make word noises, etc.), and be "aware" of the world in a neutral sense (i.e. not bump into things, etc.). But you can get robots to do that (or you probably will eventually, AI is a bit vaporwareish for the foreseeable future, but it's bound to happen eventually). All that is programming, theoretically uploadable, no in-principle barrier to it - you could either upload it or get a machine to behave similarly.
But would such a thing be conscious? Would there be anybody home? That's what's meant by "soul" here (and it's pretty much what's traditionally meant by "soul" too). It's Consciuosness with a hypoethetical big 'C.'
Hollywood has indeed treated the problem crudely, but this game doesn't - obviously not since it's based on the cyberpunk genre which is generally written by big-brained folks who've thought deeply about uploading, transhumanism and the whole kit and caboodle (i.e. you're quite wrong that this isn't a cyberpunk genre topic, it's quite properly at home in the game).
You can fault the game for many things, but triviality of subject matter isn't one of them.