I think the main point is that Metroid Prime 3 = direct sequel to MP2, which = direct sequel to MP1, and all = part of a specific Metroid series.
Bioshock was supposed to be a completely new game. Forgive me if I'm wrong (I haven't kept up with it at all), but I don't think Irrational Games actually specifically MEANT for it to be a "sequel" or "spiritual successor" at all (at least, not originally. If they ever DID say anything about that, I'm willing to bet it was AFTER the similarities started getting noticed by outsiders).
So, what I'm saying is that the Metroid series is, and always has been, supposed to resemble previous games. That's what being part of a series is about. Bioshock, though, was supposed to be a whole new experience, and really, really wasn't - especially compared to another game by the same company.
I mean, sure, similar games happen. But it's the mark of a good developer when the games you're known for aren't all similar when they're not supposed to be.
Don't think I'm taking one side or another here, please. I'm just clarifying what I see this whole argument as actually being about.
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