Hyrule Castle: From where you start, go to the part where that man tells you to get some sleep. Go right and up. In one of the bushes is a passageway.
Eastern Palace: From your house, go right, up, right, and up. Solve the maze to enter.
Desert Palace: Go to the library and dash at the shelf. Go to the desert and use the Book of Mudora to enter.
Death Mountain Palace: Open one of the things on top of the mountain and turn into Mr. Bunny. Go to the dirt that is a different color and use Magic Mirror.
Hyrule 2: Go into Hyrule Castle and go left then down. Go to where the Force Field is located, near the eye. Kill it with the Master Sword.
Palace of Darkness: Make sure you have at least 110 rupees. Proceed until you see a monkey that says he wants 10 rupees. Give them to him and go to the entrance. Then, pay him 100 rupees.
Swamp Palace: Go to the Light World near the cave where you drain the water. Drain the water then go to the Dark World and enter.
Skull Woods: Go into the Dark World and go to the entrance to the woods. Use the hammer and open the 8 stone.
Thieves' Town: Use the same method as before, but go into the village in the Dark World. Go to where the duck would be, and pull on the fork.
Ice Palace: Go to the island in the Light World that requires 5 or 20 rupees to be thrown. Pull the black stone and go to the Dark World.
Misery Mire: Use the flute to go to destination 6. Pull the black stone and enter the desert in Dark World. If you have not gotten the Ether yet, it is to the left of the Death Mountain Palace dungeon. All you need is the Master Sword and the Book Of Mudora. Use your Ether on the Ether icon on the floor.
Turtle Rock: Use the same method for the Death Mountain Palace and go to the right. Use the hammer and continue going right. When you see a big black stone blocking three hammer objects, pick it up. Hammer the things down in order. If done correctly, a Dark World portal will open. Enter and use the quake.
Gannon's Tower: After exiting Turtle Rock, go to where the Death Mountain Palace dungeon would be.