I'm not sure what you're driving at. Are you saying that Bioshock and Bioshock Infinite are like System Shock 2? Or are you saying that they're prime targets and reference examples for examining what's going wrong?
Perhaps the author never heard of them (in which case: I want a rock like that!), or more likely, didn't play them and did not want to speak from hearsay, or even more likely, simply didn't afford a thought to them while in the middle of their rant-typing-spree.
I'd grant them that Bioshock shares many of the elements that are praised about System Shock 2. Bioshock Infinite sounds like a great example of sequel gone wrong on the aspects the article's author dislikes.