Complete the Ice Palace followed by the Misery Mire Maze. Go to your house in the Dark World and buy the orange and white bomb.
Go to where the witch's hut is located and pull up the rock. Go south, then go east There will be two caves, one open and one that needs to be bombed. Bomb it to get the Ice Rod.
Drastic Dark World Shortcut
Upon entering Dark World and completing the first dungeon, Link can enter the Thieves' Den dungeon in the Village of Outcasts and upon completing it, he can use the Titan's Mitt to get the Dwarves to upgrade the Master Sword from L2 to L3.
Blind Spot In Tile Trap Rooms
In rooms with the poltregeist tiles, stand at the edge of the room and face the center of the room. The tiles will bounce harmlessly off the shield.
Earn ten medals in the Four Swords mode to start the riddle quest with the Lumberjack in Link to the Past. Finish the Riddle Quest to obtain the "Hurricane Blade" skill.
The running man in Kakariko Village, that dashes away from you each time you approach, can actually be caught up to. To catch him, run towards him with the Pegasus Shoes. It'll take some practice, but you can catch up to him. Nothing useful happens though, he just tells you about some various things that aren't very important. Still, it's fun to be able to catch him.
The Chickens Attack
The Chickens found in Kakariko Village and other areas have a vendetta against you; that is, of course, if you attack them. Hit a chicken enough with your various weapons, whether it be sword, arrow, bomb, whatever, and the chickens will come from all directions to peck you! It's a storm of chickens! Not really a useful secret, but a good one none-the-less, wouldn't you say?
The Waterfall of Wishing
A fairly important secret, the Waterfall of Wishing provides Link the opportunity to upgrade two of his very important items, his Shield and his Boomerang. The Waterfall of Wishing is located at the end of the river in which you get the Flippers from Zora, but on the opposite end of the river. Pass by the Witch's Hut, move the green stone to gain access to the river, and you'll be in the general vicinity. You need the Flippers to access the Waterfall of Wishing, however. Read the signs in the area to find its location, and then jump into the water. Swim north into a waterfall and you'll be in a secret cave. Now, approach the pond in the cave and it'll ask you to throw an item into the water. Throw your Shield in the water to get the Red Shield back, and your Boomerang in the water to get the Magical Boomerang back, both free of charge.
Unlock Sword Beam in Four Swords
Play Link to the Past and get the Master Sword in the Lost Woods (you will need all three amulets for this). Once you have the Master Sword, save your game. When you quit and start the game again, a message will confirm that you can now use the Sword Beam (when your heart meter is full) in Four Swords as well.
Hint: Hidden bee
There is a secret bee that will never fly away from you. Go to the cave where the Ice Rod is obtained. In the cave next to that one is a statue of a fairy. Run into it and the bee will appear.
Glitch: Instruction manual error
Under the items for A Link To The Past, the Roc's Cape is listed. However, it is really the Magic Cape. The Roc's Cape is only in The Four Swords.
Glitch: Run very fast
Jump off Spectacle Rock (near the first warp pad you find in the game) in the Light World and land on top of the cave entrance. You will go into the cave, but the screen change animation will glitch. You will appear in the middle of the screen, but none of the buttons (except Start and Select) will do anything. The only thing you can do at this point is save and quit the game.
Glitch: Turbo dig
When you get the shovel and the magic boomerang (the normal version may also work), you can dig very quickly. Throw the boomerang, quickly change to the shovel, and dig. The spot where the boomerang passes by will be dug.
After obtaining the magic bee, go to the man who sold you the bottle. Release the bee near him and he will buy it for 100 rupees. Go to the dark world and go into the store in town. You can now buy more magic bees and sell them.
Lower magic consumption rate
After you obtain the hammer in the Palace of Darkness in the Dark World. Return to Kakariko village in the Light world. Beside the Smith's house, you will see a pole you can now knock down with your hammer, proceed to jump into the well and walk into the door on the north end of the room. You will see a statue of a hand holding a bowl with a red substance in it. Use your magic powder on it and a little demon will appear claiming to curse you. He instead will put a 1/2 mark on the top of your magic gauge, making it use half the amount of magic to use your magic using items such as your medallions and rods.
When you see an ex-fairy (a skull with four red blocks on it) sprinkle magic powder on it and it will turn into a fairy.