* EsotericHappyEnding: Johnny fulfills his wish; But... because they're only changing memories, not the past, [[spoiler: the real Johnny dies never knowing what his wife was trying to tell him, and the real River dies knowing Johnny never understood/remembered what she kept trying to hint at. Well, assuming ''any'' of it was ever real to begin with]].
* FridgeBrilliance:
** Why didn't River just tell John about [[spoiler: their first meeting, without going through the whole rabbit ordeal]]? At first it seems that it's only due to her [[spoiler: Asperger's]], but revisiting the first part of the story, it becomes apparent that she wanted, in her own way, to bridge the gap between them by [[spoiler: reminding him of (arguably) the only time when they truly connected]], and that wouldn't work unless he remembered on his own. When you realize that River made the [[spoiler:rabbits to try and remind Johnny of their first meeting. And that when the white rabbits didn't work, she tried a yellow one, because the moon is yellow. And that when the yellow one didn't work, she managed to make one with a yellow belly (for the moon) and blue head and feet (for the sky and stars). To add an extra layer to it... Her wedding dress was yellow and blue.]]
* FridgeHorror: During TheStinger, it's implied that [[spoiler: Neil might be dying.]] And once you think about it, you come to understand why he's constantly acting immature, doing stupid things, being mean, jerkish and funny: He's trying to make the most out of life before he dies...
** [[spoiler: It's implied that all of the game's events in fact take place in Neil's head, quite possibly while he is in a similar state to John. Consider the Deja Vu of the squirrels running along the same path twice, almost like a glitch in the matrix.]]
** The first theory is further hinted at the very beginning of the game, in an optional scene you could miss entirely if you played as [[spoiler: Eva]]: the mock RPG fight against the squirrel. If you check [[spoiler: Neil]]'s health bar, you'll see it's not full. If you play with [[spoiler: Eva]], the bar will be full.
** To support the theory that [[spoiler: Neil is dying]], at the carnival when they meet the fortune-teller, [[spoiler: Neil refuses to see his future, saying "Good or bad, I'd be screwed either way."]]
* GeniusBonus: A few small ones.
** The agency is called Sigmund Corp. As in Sigmund Freud, the famous psychologist.
** [[spoiler:Izzy describes Johnny as "neurotypical," which is not a word that's thrown around much outside of people who know a few things about the ASD spectrum]]
** [[spoiler:Tony Attwood]] is mentioned. If you already know who he is, then you know what's going on with [[spoiler:River]].
** Part of the code in the background when you prepare a memento says, "Step twice into the river of life." If you're familiar with philosophy, this is based on a quote from Heraclitus, a Greek philosopher who said, "No man ever steps in the same river twice."
* JerkAssWoobie: [[spoiler: Neil.]] Although it all depends on how you viewed his character and how you interpreted TheStinger.
* MagnificentBastard: The reactions of quite a few players to [[spoiler: Eva's BatmanGambit that, by removing River from Johnny's environment, that ''both'' would be motivated enough to qualify for NASA]].
* SuspiciouslySimilarSong: "Everything's Alright" is very similar to [[FinalFantasyVIII "Eyes on Me"]], especially the chorus.
* TearJerker: The whole game, really.
* TheWoobie: [[spoiler: Joey.]] Also River. And depending on how you interpret the implications, [[spoiler: Neil.]]