The Legend of Zelda: The Wind Waker
The Legend of Zelda: The Wind Waker
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In the Italian release of the game, Tetra is named "Dazel", which is an anagram of "Zelda."
Contributed by G-Haven
Since Link is left-handed in this iteration, he holds the Wind Waker in his left hand, while a conductor would more properly hold the baton in their right hand. Despite this he still uses the baton to adjust what time to play in, and his free hand to signal the pitch, just as a conductor would do, but with the opposite hands.
Contributed by Kitsune Hawk
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Link is voiced by Sachi Matsumoto, the same actor who voiced the Skull Kid from The Legend of Zelda: Majora's Mask.
Contributed by Boyobmas
In the E3 2002 trailer, the song "Riddles of Steel" from the 1982 film Conan the Barbarian is used. This song was also used in the commercial for Ocarina of Time, and was later used in the E3 2004 trailer for Twilight Princess.
Contributed by Takahashi2212
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Koboli, the postman found behind the counter found on Dragon Roost Island, was designed after the Postman from Majora's Mask. Through Zelda lore it is believed that the Running Man from Ocarina of Time is one of Koboli's ancestors, since the Zelda timeline makes it impossible for the Postman and Koboli to be related.
Contributed by Shankapotomus
Link's body has animations for swimming and floating idly, but as all of the water in the game is opaque, the animations are never seen in the game. The only way to see them is by going into the game's unused test rooms, as they have clear water.
Contributed by Takahashi2212
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The three goddess statues are actually a reference to Pikmin. The Din statue has a nose like a Red Pikmin, The Faore statue has ears like a Yellow Pikmin, and the Nayru statue has a crack that looks like a mouth, the defining trait of a Blue Pikmin.
Contributed by KidDivinegon
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The mountains around Ganon's Tower include a small cave that is usually not visible to the player. It is speculated that this may have been intended as a longer route to the tower instead of the straight entrance that Link takes in the final game.
Contributed by RetroRex
Some of the music tracks in the game are either remixes or contain small renditions of music from previous Zelda games. The tracks are:

Windfall Island (Kakariko Village - A Link to the Past)
Dragon Roost Cavern (Dodongo's Cavern - Ocarina of Time)
The Portal Sound (Final Hours - Majora's Mask)
Inner Forest Haven (Kokiri Forest/Saria's Song - Ocarina of Time)
The Great Sea Theme (Overworld Theme - The Legend of Zelda)
Contributed by Bean101
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The idea to make The Wind Waker in HD came from the developers playing around with the Zelda HD Experience tech-demo. They used the same lighting from the demo on Link's The Wind Waker model, and his appearance had such a strong impact that they started to do the same with The Wind Waker's environments as well.

"We took the various versions of Link from the Zelda HD Experience, [Skyward] Sword and The Wind Waker and lined them up in the same setting. We used practically the same shader and brought out the same shading, and Link from The Wind Waker made an overwhelmingly strong impact. He exerted some kind of unnatural pressure." - Satoru Takizawa
Contributed by DidYouKnowGaming
Several of the developers wives became interested in the game because of its visuals, despite not being gamers themselves. Eiji Aonuma's wife (from that point onward) began to play games he'd worked on.
Contributed by DidYouKnowGaming
The game's drastic change in art direction came from the desire to reinvigorate the Zelda development team. The hope was the new direction would inspire new gameplay ideas, which it did.
Contributed by DidYouKnowGaming
The game's file select screen undergoes a 7-minute day to night cycle, starting at whatever time the Gamecube's internal clock is set to.
Contributed by game4brains
The Stars at night are not part of the skybox texture; they are actually polygonal vector models. This is done because vector graphics are infinitely scale-able and having a textured skybox would look pixelated if looked at through the telescope.
Contributed by Smurfman256
The portal sound is made with the same audio used for "the final hours" in Majora's Mask.
The game's main theme song is a combination of both the Earth God's Lyric and the Wind God's Aria, both of which are the last songs you learn in the game.
Contributed by gamemaster1991
The audio used for the ChuChus is an argument between two Japanese men, but sped up and played in reverse.

The man at the start says "At least I'm not balding" and the man near the end says "and looking like you are, people will think you're a monster".

Thank you to SteelBallJack for the translation. The audio has been updated from the source, as it wasn't reversed until now.
Contributed by DidYouKnowGaming
Link yells "Come on!" when he calls Medli, Makar, or a statue using the Command Melody. This marked The Wind Waker as the first canon Zelda game in which Link speaks actual words.
Contributed by Cheshireson
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Real world constellations can be seen in the skies at night. These include The Big Dipper, Orion, and Cassiopeia.
Contributed by ecylisis
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There is an Ocktorok sprite from the original Legend of Zelda on Manny's bag.
Contributed by ecylisis
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Inside the Master Sword chamber of Hyrule Castle, there are stained glass windows depicting the Seven Sages from Ocarina of Time, Link, Zelda and Ganon.
Contributed by ecylisis
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Behind Garlov's desk you can see the Bunny Mask, All Night Mask, Goron Mask, and the Keaton Mask, likely a reference to Majora's Mask. There also appears to be Chateau Romani on the shelf.
Contributed by ecylisis
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Just as there was a "Dee Ess Island" in Phantom Hourglass, Hyrule Historia reveals that there was a plan for a GameCube Island in Wind Waker which never made it into the game. The only reference to it is a piece of concept art, shown in the book.
Contributed by Charlie
There's an item hidden in the game's code called the "Water Boots." They have no effect, but putting them on uses the same animation and sound as the Iron Boots. It's speculated that they may have been used for underwater swimming, or sinking underwater like the Iron Boots from Ocarina of Time.
Contributed by ecylisis
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In game's maps and stages 3D model directory, there is a folder named "Tincle". The model presents the interior of a house, which only uses two textures. The first is a mess of paint with what appears to be a cat-eye face standing out. This texture covers the walls, ceiling, canvas, canvas borders, and much more. The second is a regular wood texture, soiled by black, green, red, blue, and yellow paint lines, which is used for the ceiling fan, table, and what appears to be a door. It is unknown what the purpose of this model was, nor why it was removed from the final game.
Contributed by Lexou Duck
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The Hylian text on Phantom Ganon's sword translates to 'Zubora Gabora.' Zubora and Gabora are the names of the two blacksmiths from Snowhead Mountain in Majora's Mask.
Contributed by DidYouKnowGaming
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There are a large number of incomplete and test rooms in the code for Wind Waker. Among them, there are even completely functional areas which were simply removed from the final game for various reasons. While not accessible via normal means, they can be accessed via cheat devices like Action Replay.
Contributed by Petie