Just finished, so confused. And I found lots of the "secrets" too.
I'm in the minority in that I was very excited to play this game for years, but ultimately underwhelmed now that I've played it mainly from a narrative sense given how obtuse it is when it comes to story. Maybe I expected more of an explanation, and I'm searching for one? Hence, coming here to discuss!
Art direction, sound design, puzzles all were good. It's just the story, which is so key to a shorter game like this, that's nagging at me..
Edit: Oh, and did anyone find the hidden alternate ending? I don't think I did, going to probably watch a video to see what happens there.