I found no difficulty following the 3.0 plot

I really don't see what is the problem this time around (aside of maybe a little too much puzzles). The story is straighforward, dialogues are decent, everything is obviously a set up for a future, nothing exactly brain-exhausting. At this point, it feels like some people want it to be storybook for elementary school, because frankly speaking, if you had problems with following this, the problem is you, not the story. I can see why studies has shown literacy and attention span are declining.