Welcome to my final part of my walkthru. It's time to show Ganondorf what we got!
Ganon Strikes BACK!
Go down into Hyrule and go inside the Castle.... WHAT A MESS! Zelda might of had a party and got too drunk, breakin your Statue! Go downstairs and say hello. You see her dissappear! As the famous ADmiral Ackbar of Star Wars, "IT'S A TRAP!" Ganondorf's power is back, and he's pissed! Two Mighty Darknuts appear. Use the same tactics with all Darknuts and beat them. Defeating them lowers the flames. Go back up and run out the path you couldn't go out very far. Swing your Master Sword at the barrier. It breaks! Go down the path, fighting everything. To enter Ganon's Tower, Hookshot to the targets on the arches and destroing Keeses as they try to hurt you. At the cavern's opening, go straight and go in the door.
Revenge of The Bosses
In the central hub of Ganon's Tower, there's 5 rooms: 4 dungeon ones and one to continue. There's dungeon related puzzles in each room and the dungeon's boss. There's Dragon Roost, Forbidden Woods, and the two temples. Here's how to beat each one:
Dragon Roost

To cross the lava, throw the pots or shoot Ice Arrows to make platforms. The second to last platform shoots up. Go on it, jump off it, and fly to the door. Inside is a black and white version of Gohma. You lose every items you didn't have facing him, except the Master Sword, making you reequip items that you need (Grappling Hook). He's faster to lose due to the Master Sword. Check the boss guide to see how to beat him. You'll warp to the central room and one lock on the door will dissappear. Now, Forbidden Woods!
Forbidden Woods

Right when entering, use the Deku leaf on the pinwheel to get the platform. Ride it. When it stops, glide to the snake-like platform and blow wind at the pinwheel below to get the second platform. Ride the second platform to it's end, glide to the right platform, then to the one on the left. When the left goes high, glide to the boss door. IF you want defeat the Peahats if you want. Go face Kalle Demos. Again, due to the Master Sword, he's faster to beat, and you need to reequip items. Defeat him, and you'll go to the central room.Now, WIND TEMPLE!
Wind Temple

At the entrance, defeat the Wizzrobe. Jump off the springboard and glide across the first pit. When across the spikes and on the ground, use the other spring to glide between the gusts. When landed, defeat the 2 Sheilded Bokoblins. After that, Hookshot the target on the left side wall by the boss door to go inside.
When facing Molgera, use the same tactics, and don't forget to reequip! It'll take the same amount of hits as last time, since you DID have the Master Sword. Also, check the boss guide for winning strategies. Finally, after beating Molgera and warping back, to the final room, the Earth Temple!
Earth Temple

Ok, this is fast and Furious! From the start, keep pressing "A" to not get hit by falling Coffins. You can also aoid the ReDeads and Red Bubbles coming out this way. At the end of the hall, climb the stairs.
A second crypt row is here. At the end is a constant pressure switch. Opposite of it is a beam of light, using it, solidify Poes. Take them out from a distance. Inside some coffins are Dark ChuChus (Ones that turn to stone.). Lure one by the switch, turn it to stone, and put it on the switch. Roll to the other side so you get there in time. When upstairs, it's deja vu! It's the same exact thing except the light and switch are switched. Again, lure, freeze, and run to the stairs. This time, a Stalfos appears! Run by him! Go through the door to face Jalhalla.
You guys know what to do: reequip, repeat previous beating. You'll warp back to the central room and the last door will unlock, allowing your quest to Ganondorf continue...

The Staircase

Run up and fight Miniblins along the way. Go thru the door at the top.

THE RETURN OF THE KING

In th large round room, go thru the door on the right. When you enter it, the camera zooms on 4 torches in a certain order: far left, near left, near right, far right. The King says to remember every detail. Go in the corner and read the Grave: it means the sword blades of 'Dorf minions will point where to go if you want to reach 'Dorf. Leave the room. When going back to the large room, go straight across the room to the other room directly across from you. It has four Crystal switches and zooms on them the same order as last time. Using the boomerang, hit them in the same order: far left, near left, near right, far right. A passage opens and your trusty ship comes in tell you the purple is a gateway back up to the Forbidden Fortress. IF YOU WANT TO DO ANYTHING ELSE IN THE GAME, GO IN, BECAUSE YOU ARE GOING INTO THE POINT OF NO RETURN! Ok, now go back to the room with the grave and go straight off the cliff to reach the next part of the Tower.

Boss: PHANTOM GANON

You are now in an aren facing PHantom Ganon. He has the same energy attack, plus new ones! It can split into 5 Ganons and strike, but you can dodge it. Also, he can charge up and shoot red balls of evil magic, which is also dodgeable. All you can do is dodge wait for him to do the white energy all attack, keep bouncing it back until it hits him, and strike him. After being defeated, he sword is left behind, pointing where to go. Just follow the hilt.

After beating him 7 times, you get a chest. You get the LIGHT ARROW. You select it just like selecting fire or ice arrows. Going throught the door the seventh Ganon tells you to go, you go to the room with four torches and switches each. You face Ganon again, but now since you have the Light Arrows, L-Target him and defeat him once and for all! His sword is left to you. Throw it at the door with the horns. It'll shatter, continuing your quest.

Fighting Uphill

Here's another long stairway. Along the way, you must face 3 Moblins, 1 regular Darknut, and 2 Mighty Darknuts. For fun, use the Light Arrows. You'll like it. Enter the door at the top to see a cinematic and face Puppet Ganon.
BOSS BATTLE: PUPPET GANON
Check my boss guide for the strategy.

THE POINT OF NO RETURN: RETURN OF THE LEGEND

NOTE: Before going on, if there is ANYTHING you want to do before beating the game, DO IT NOW!

You see Ganon up top, holding Zelda. He bates you and dissappears. Run to the puppet's string and climb it. Go to the middle of the platform and and CAREFULLY hop to the rafters at the next platform's edge. Using the Grappling Hook, target the pole above the edge and climb the rope. In the center of these beams are pots with hearts and magic vitals. Use them as needed. Go up with the hook again to get a lone pot holding a Fairy. There's also a Warp Jar. Bomb it. Go in it to go up. There are more pots with useful items, and a couple of harmless Morths. Save your game, and Hookshot to the target and go into the light.... Go in my boss guide to finally destroy Ganondorf. After that, CONGRATS! Now tht you beat the great game, I'll be doing more guides on how to get everything in the game. From Heart pieces to charts, your gonna get it.