- Zelda's Lullaby is played in the ending to send Link back to being a kid. But remember that Zelda talks about "returning to the way you were supposed to be" and such — playing Zelda's Lullaby by a shattered sign restores it to normal, so why can't Zelda's copious magic power do the same for Link himself?
- Sheik's theme is Zelda's Lullaby arranged slightly differently and at a different speed. The music was also in disguise.
- If Link gets paralyzed by a Deku Nut when Sheik throws it, then why is he able to throw a Deku Nut and not get paralyzed? Answer: If you look at the animation of him throwing one, you can see he is covering his eyes when throwing it.
- Many a player has got frustrated with Navi's apparently completely useless advice in the Great Deku Tree — "Yes, Navi, we know how to open a door!" Except that there aren't any buildings that have doors in Kokiri Forest… and if Link was left there as an infant, then he's never actually seen a door before, thus making Navi's advice… completely relevant and useful for him.
- "Sheik" is an Arabic word for a tribal leader. Zelda (and by extension, Sheik) is the ruler of the Sages. Sheik also claimed to be a member of the Sheikah tribe.
- The "official" timeline released for the series indicates that all the games that were released before Ocarina of Time took place in a timeline where the Hero of Time was defeated by Ganon…but after OOT, we have games based on the two timelines where the Hero won the fight. The previous games were based on Link losing the final boss fight because you, the player, weren't there to guide him to victory. Winning the last boss fight in Ocarina of Time is actually the player themselves being able to Set Right What Once Went Wrong for the entire series. This makes more sense in the opening cutscene: Link had a dream of Impa riding away from Ganondorf with Zelda. Later on, Zelda thought Link's name sounded familiar. This means, after Link's defeat and Ganon's sealing, Zelda went back in time with the Ocarina of Time to Set Right What Once Went Wrong, but in the process, she may not remember everything due to the Triforce's completion (while she possesses Wisdom, she no longer has its possession). This also means due to Link having the Triforce of Courage, he was able to remember everything when he finally won his final battle with Ganon. This would also explain why Zelda was Properly Paranoid.
- The King of Hyrule trusting Ganondorf is generally accepted (understandably so) as an Idiot Ball moment, but there is a kernel of justification for it: the Gerudo are a tribe of thieves (and kidnappers, at least in the future). It makes sense that the King would jump at the chance to have Ganondorf swear allegiance to him — an alliance with a king of thieves would potentially allow Hyrule to avoid becoming a victim of their crimes.
- In addition, there's no evidence that the King did trust Ganondorf completely, just because he didn't believe that his daughter was a prophet. He might've been conducting some investigations of his own into Ganondorf's loyalties, which might be way Ganondorf attacked the castle in the first place.
- Tears of the Kingdom has a very similar situation; King Raruru claims that since Ganondorf is obviously a spiteful, evil individual, it's far better keeping him in position where he can be constantly put under close watch than allowing him to roam unchecked.
- The story implies that Ganondorf seemingly doubled back from his chase of Zelda to tail Link to the Temple of Time on a whim — until you remember that he saw Link in the window when the latter was first meeting Zelda. The Gerudo had been to the three regions holding the Spiritual Stones recently, all he had to do was bide his time until they all crumbled and he could sweep the stones up. But then this random child shows up, and his evil influence is mostly purged shortly after with the Spiritual Stones gone. More than likely, Ganondorf enacted his attempts to capture Zelda because Link foiled the rest of the plans and was going to wait with the Ocarina of Time for a Macguffin Delivery Service, only for Link himself to literally dare to stand right in front of him, opening the Door of Time without him having to lift a finger as he simply pretends he didn't remember Link to trick the boy. Zelda's dismissal of Ganondorf not knowing their plan meant she herself disregarded that the King of Gerudos had Out-Gambitted them from the word "go".
- Whenever Link defeats a boss as an adult, he is transported via being encased in a transparent blue gemstone to the Sacred Realm so he can meet with the awakened Sage. Those same blue gemstones were used again by Agahnim to imprison the seven maidens in the Dark World (the corrupted Sacred Realm) in Link to the Past. No doubt he learned to use that same spell, long after the events of OoT took place.
- Why does Link not understand Ruto's proposal to him? Because he grew up in the forest with a bunch of kids! He has no concept of "marriage"!
- Dark Link doing a Blade Run on Link's sword should he attempt to crouch-stab. Why counter this one move so specifically? But the Fearful Symmetry page puts the fight with Dark Link… alongside the one from Adventure of Link. It doesn't make sense from a chronological standpoint, but it looks like the game developers caught on to the crouch-stab trick from The Adventure of Link, and explicitly punished any veteran to Zelda who would think to try the same trick again here.
- As soon as you get the Fairy Ocarina, you can play every single song in the game and then some, but they won't have any effect until you've "officially" learned the song. Why? Whenever Link completes a song, he plays a few notes past the ones you played on the controller. You can play the first few notes all you want, but it won't be the same song until Link learns the rest of it.
- Given that they referred to Ganondorf as "great" and there didn't seem to be any particular difference made to their lives when you clear the Spirit Temple, why do the Gerudo celebrate the fall of their king with all the other races? Well, it's mentioned by the Gerudo themselves that there were rumors of brainwashing experiments in the Spirit Temple which turn out to be true. The problem that was afflicting the Gerudo was a climate of fear. They had to voice their support of Ganondorf; a single word of dissent could mean being dragged off and forcibly converted into a mindless slave (i.e. Iron Knuckles) and would likely never regain their free will like Nabooru did.
- Given this, there's also the possibility that if the Gerudo didn't agree with Ganondorf, and were siding with him strictly out of custom, (Something Nabooru heavily hints at), then its likely that they'll receive a pardon for aiding him, and be invited to live in Hyrule, a much more hospitable place than the desert. This is given even more credence because Zelda, who will likely be queen at this point, knows of Narbooru's aid and status as a Sage, will have the authority to do so.
- Farore's Wind is the Goddess Spell that a lot of players don't end up using - it's just a quick teleportation that may or may not save you a couple seconds, compared to Din's Fire saving you a lot of trash mobs and Nayru's Love saving you a lot of hearts. Then you realize: Link, as the bearer of the Triforce of Courage, isn't going to back down. He's not going to run. Farore's Wind is the Goddess of Courage telling him to stop pushing himself.
- The Weird Egg that Malon gives you hatches into a chicken. Considering all other chicken-like fowl in-universe are called cuccos, an egg that hatches into a chicken really is a weird egg.
- The fact that said chicken is fully grown as soon as it hatches is kind of weird too...
- The medallions and their corresponding sages are pretty straightforward, save for perhaps that of Spirit. But thinking about it, that sage and medallion is related to the Gerudo tribe that lives in the desert. "Spirit," in this case could be synonymous with "willpower" or "drive." Who would actually have more willpower than a tribe that lives out in the desert, the harshest of environments?
- Ganondorf's blood being changed from red to green makes a measure of sense when you think about it. Skin is translucent, and the color it takes is influenced by the color of the blood running through the body. Considering that Ganondorf in this game has a pretty noticable olive green skintone, his having green hued blood isn't really all that strange.
- The three timelines that split as a result of the game all have one holder of the Triforce remain in that timeline. Ganondorf, Triforce of Power, rules the timeline where Link dies to him and Zelda either joins him in death or is imprisoned.. Link, the Triforce of Courage, lives on in the Child Timeline, being away from both Zelda and Ganondorf. Zelda, the Triforce of Wisdom, oversees the remnants of the Adult Timeline, with Ganondorf sealed and Link sent back.
- It's explained that adult Link doesn't use child Link's items because they're too small for him, but no such explanation is given in-game for why child Link can't use most of adult Link's items. While it could easily be explained as them being too big for him as an inversion of the previous explanation (and is, in fact, explicit for the Silver Gauntlets, which are acquired as a child), it could also be due to the Timey-Wimey Ball: Link is arguably unable to use most of his adult-usage items as a child simply due to the fact that he doesn't have them at that time. (Generic items like bottles and explosives are exempt due to it being too much trouble to maintain separate inventories for each time period when you can switch which you're playing in at will.)
- Whenever Link enters the Lost Woods, monsters try to attack him, but it's outright said that the other Kokiri travel there frequently, and Saria is able to navigate past all of the traps, plus two Wolfos and a maze of Mad Scrubs, to reach the Sacred Forest Meadow. A case of Gameplay and Story Segregation? No—the monsters are attacking Link because he isn't a Kokiri! They're only hostile to Hylians, and largely leave the Kokiri alone. That's why Saria isn't fazed by the beasts—they let her pass. That also explains why Saria becomes so terrified when she travels to the Forest Temple and sees actually hostile monsters—something has driven the beasts mad, and now she, and all of the other Kokiri, have to fight for the first time.
- The Twinrova Sisters, Koume and Kotake, are witches who wield the power of fire and ice respectively. While their polar opposite elements give players a clue on how to defeat them, it also fits with well with temperatures of the desert, representing the extreme heat at day and extreme cold at night. They are also the surrogate mothers of Ganondorf and what was Ganondorf's motive for pursuing the Triforce according to The Wind Waker?
"My country lay within a vast desert. When the sun rose into the sky, a burning wind punished my lands, searing the world. And when the moon climbed into the dark of night, a frigid gale pierced our homes. No matter when it came, the wind carried the same thing... death."
- If you talk to the couple dancing in Castle Town, the man will tell his girlfriend that she’s “more beautiful than Princess Zelda”. While it seems strange to compare his partner to a child, children from royalty often had their portraits painted to look much older.
- The Iconic "Song of Storms" originated in this game, the origins is astounding. The Windmill Hut Musician wanted a song that goes around and around like the windmill, but as a child, Link couldn't really couldn't help him. Arriving seven years later as an adult, the same Musician is irate that the song basically ruined the windmill and teaches you the song "Song of Storm", because he learned it from you as a child. If you go back in time and play the song to him, the Musician will start his downward spiral because now the windmill is going too fast, and he learns the song there. The song has no true beginning, it just went around and around, as the Musician wanted.
- If you don't collect enough Gold Skulltula tokens by the end of the game, the family will be skulltulas for the rest of their lives and no one will be able to help them.
- The Deku Tree Sprout revealing to Link his origins. Sure, it might sound like a motivation or destiny, but it could be a lot for Link to take in, seeing how he believed he was a Kokiri all his life.
- Stay in Hyrule Field during the night, and wherever you go, an infinite amount of Stalchildren start clawing their way out of the ground to attack you. So apparently, most of Hyrule is actually a mass grave where the angry dead are just waiting for a chance to get ahold of anyone wandering around. Worse yet, a mass grave of children. Then you remember there was a civil war just ten years prior…
- Made worse by the fact that the Stalchildren only appear in Young Link's time; they're completely absent in Adult Link's time. Assuming that the Stalchildren are indeed the corpses from the Civil War ten years prior, this can be explained by two different theories. The first of which is that the Stalchildrens' bones finally decomposed and that they found their final rest at last. The second of which, and infinitely more terrifying, is that something happened in between the past and the Bad Future that caused them to disappear. Now remember that Ganondorf is an outright Evil Sorcerer who has shown to have the ability to infest entire locations with monsters as per his curses. It's hard not to imagine that Ganondorf ended up using the souls of the dead Hylian children to form new monsters...
- Navi identifies Koume and Kotake as Ganondorf's surrogate mothers. Not only would this explain some of how he turned out if he was raised by a pair of evil witches, but it also means he may have lost his real mother at some point early in his life.
- Breath of the Wild provides some retroactive horror: the Master Sword put young Link to sleep because its power would have killed its chosen otherwise.
- There are certain things you can do as Young Link that slightly alter the future, making certain things easier for Adult Link (such as collecting Heart Containers). However, if you believe in the Alternate Timeline theory, this means every time Young Link does one of these things, the future Adult Link returns to is not exactly the same one, but a slightly different timeline. This means any time you go back in time to plant a bean, you've just doomed an entire branching timeline to destruction at the hands of Ganondorf. This may, in fact, be the origin of the Hero's Defeat timeline.
- The fact that Link's mother escaped with him in tow from a civil war prior to the game has its own sordid implications. The Shadow Temple and the Bottom of the Well may not just be an embodiment of the sins of the Royal Family, but effectively filled with hatred of its acquired dead in fairly recent history that Ganondorf could exploit. And yet despite all of this, and roughly ten or so years passed since the war, everything is so cheerful you'd think a potential mass of death and purge of the opposition didn't occur.
- It also implies that whatever was going on in this conflict was bad enough that anyone was viable to be murdered. We never find out whether Link and his mother were of any notable lineage or simple citizens, but the fact that his mother died of wounds strongly implies that either they had been attacked for simply being in the wrong place at the wrong time, or they were explicitly targeted by forces unknown — potentially even Royal Guards or the Sheikah themselves.
- It's implied that Ganon's Castle was formerly or Hyrule Castle or formerly sat on it. Now look at the Lava pit and play "Tears of the Kingdom".note That lava pit may not be a lava pit at all. It may be in fact, Gloom.
- Speaking of "Tears of the Kingdom" and the Lava/gloom pit, if "Tears of the Kingdom" is the Ultimate Timeline, As Tears Rauru canonically sealed his Ganon under Hyrule Castle, it is lucky that Ganon's destruction of Hyrule Castle for his own castle did not break the seal for Tears Ganon for Ocarina Link to fight.
- Once you find out what's at the bottom of the Kakariko well, and realize this is presumably the source of the village's drinking water.
On the headscratchers page.
- You'll see Epona galloping free, but alone, across Hyrule Field in the ending. Link was the only one she loved as her rider, the only one who ever tamed her. With Link removed from this timeline she's now a wild horse no one can approach. While Link reunites with his beloved steed in Majora's Mask where they care dearly for each other, this Epona will alas, roam the fields forever without a companion.
- Someone on Reddit noted
that if you call Saria after obtaining the Ocarina Of Time (after which the Fairy Ocarina no longer becomes relevant), Saria will comment that the Ocarina sounds different, and it must be due to Link getting better at playing. However, it's possible she's aware your not using the Fairy Ocarina anymore, and may be a bit hurt or saddened that you're no longer utilizing her parting gift.- In the manga the Fairy Ocarina fell victim of a involuntary switcheroo with Ganondorf: Ganondorf tried to swipe the Ocarina of Time, but got the Fairy Ocarina instead. Upon learning of his mistake he smashed it to bits in a fit of rage, thus robbing forever Link of the last gift his friend was able to grant him.
