Please note VGF's cheat codes have relocated to the main page.

 

Fairy Upgrades
You'll generally get your upgrades in this order
Bigger Wallet: holds 1,000 rupees
More Bombs: 60
More Arrows: 60
More Bombs: 99
More Arrows: 99
Bigger Wallet: holds 5000 rupees

Locations:
Northern Fairy Island
Need Bombs

Outset Island Fairy Well
Need Deku Leaf, Bombs

Western Fairy Island
Need Skull Hammer

Eastern Fairy Island
Need Bombs

Southern Fairy Island
Need Bombs

Thorned Fairy Island
Need Skull Hammer

Extra fairies:
Mother & Child Isle Fairy
Need Ballad of Gales
Simply warp to this island with the Ballad of Gales and you will receive the Fire and Ice Arrow upgrades (once you have the Hero Bow)

Big Octo Fairy
Need Boomerang or Bombs
Look for the swarm of seagulls in the quadrant and shoot the Octo's eyes to free this fairy. She will double your magic meter.
(Thanks to princesszelda1988@hotmail.com)

Hear Different Music
At the beginning of a game, type your name as “ZELDA”. Through the game you will hear a different tone of music.
(Thanks to HoopsKng@aol.com)

How to beat Ganondorf
To defeat him the first time, wait for Zelda to shoot him with a Light Arow. He'll be frozen, but not for long, so attack him, and then Parry. (A button when it lights up. After a while he'll attack Zelda. This time, just Parry again. After a while, Zelda will be back. Now, face Ganondorf (Lock on to him), Use your shield, and Zelda will shoot your Shield, making it attack Ganondorf. Now dash up to him and he'll be un-Frozen, but when he comes back, Parry. You'll see the cinema when you've beaten the Final Boss!
(Thanks to X-3)

Invisible Coat And D.X Camera
Beat the game in the first slot. Wait for the credits to end, then click “yes”. Then click the second file. Do the normal ending and you will have the DX camera and you'll be in your pyjamas through the whole game.
(Thanks to ff7cloudsephiroth@yahoo.com)

Steal Enemies Weapons
When facing an enemy with a weapon, kill the enemy and then pick up the dropped weapon. Throw the grappling hook at the enemy and you will grab its weapon!
(Thanks to paul-1@ntlworld.com)