Hyrule Castle

Barrier 1 with bombs

If you have bombs you can kill all the bokoblins in one bomb. After Entering Hyrule Castle roll 11 times towards the trigger and then pull out a bomb before the cutscene starts, once you gain control pick up the bomb and avoid the swing from the first bokoblins and then walk back towards them all. It will then explode and kill them all

Barrier 1 with ball & chain

Slash the front two bokoblins 3 times, roll back twice, then wait for the 2nd set of bokoblins to come near you. Slash the 2nd set 3 times, then throw the Ball & Chain at all of them

Skip Barrier 1

With Jumpstrike

Discoverd By Dragonbane

If You collect a rupee when charging a jumpstrike or during a jumpstrike you will delay the text until you land (If during charge up you will auto jumpstrike), Furthermore it is also disables all triggers as the rupee text is queued up next.

To do the skip first make sure you can get yellow rupee text. Break the box in the left corner at the main doors and boomerang the rupee and then target above to delay the rupee to have time to roll, while the rupee is coming to you roll to the very edge of the barrier 1 trigger (use the corner as a visual que) and then start charging a jumpstrike, the rupee will hit you and you will auto jumpstrike over the trigger allowing you to skip it. You will have to savewarp after King Bulblin 4

LJA method (GCN only)

Discovered by Paraxade

This saves minimal time and is not recommended for RTA. Get on the wall on the left side of the castle and pull out the boomerang. Aim above the rectangular hedge and throw the boomerang. As it is coming back to you, do a Long Jump Attack to get on top of the hedge. From here you can simply open the door to the next area and avoid the barrier/cutscene trigger.

Faster setup by FX

Go into the corner, and do a vertical slash. Hold right to climb the ledge, then aim the boomerang so that the left line of the reticle overlaps the small gap in the foliage. The trick barely saves time for routes that have bombs. For routes that do not have bombs, this saves 5 seconds.

Original setup by Taka

Climb in the corner of the ledge, then pull out the boomerang and tilt the camera up to push Link down the ledge slightly. Once Link can't get pushed anymore, align Link straight with the stairs, then turn 180. Target above the hedge, then LJA to make it over

Superjump method (non-LJA alternative)

Discovered by LogitechSDAZ

From the main entrance to the Hyrule Castle courtyard, head over to the left (GCN). Stand near the bush wall, and lure a Kargaroc to come near you. Use an attack to knock the Kargaroc on the other side of the bush wall, and target him with an area attack. Back up a bit, and use the the area attack to super jump over the bush wall and past the barrier.

Skip Barrier 2

Simply roll into the trigger hugging the fence on your right, skip the cutscene immediately and then hold down-right and roll, you will be outside the barrier. On the way back you can just walk inside the barrier wall as it is only one sided.

King Bulblin 4 Midna text skip

Discovered by Rodner

After King Bulblin is defeated there is a one frame window to backhop before Midna pops up. Press start during the backhop before landing and savewarp. Alternatively you can use Iron Boots instead of a Backhop. Savewarp before Links touches the ground again.
This saves ~3 seconds over the usual route.

Skip Barrier 3

Jump Attack

Simply Jump-attack towards the pillar on the right and mash pause and hold right. You will skip the cutscene as soon as possible and because link is in the air he will not walk into the barrier and holding right will keep you outside.

Helm Splitter

In the first room of Hyrule Castle, head to the middle of the room to cause the barrier to form. Head over to the right side (GCN) and wait for the group of bokoblins to appear. Just as they enter the barrier, hit the first one with a shield attack and use the helm splitter to jump over the barrier.

First room with single clawshot

It is possible by standing on the very edge of the railing to clawshot the chandelier without needing to clawshot the closer one first, this is very hard to do fast as you have to be right on the edge and not recommended

Double-Darknut Skip

Discovered by Nesman88

With precise clawshot aim it is possible to reach the Chest and Switch on the SW platform of the central chamber without having to defeat the two Darknuts for access. By clawshotting to the southern edge of the NE chandelier, then lowering down slightly (see video), you will have between 1 and 3 vertical pixels to reach the southernmost chandelier. From there, adjusting to the SW edge will let you reach the SW chandelier after again lowering down a bit (not precise).

Failed Barrier Skip comparison

If you fail to skip the barrier in this room it is both faster and significantly easier to save warp and retry instead of fighting the horde of enemies.

Darknut Skip with Jumpstrike

Discovered By DragonBane

Collecting a rupee that gives text while charging a jumpstrike will cause the jumpstrike to automatically release as a jump attack, disabling all triggers until after Link reaches the ground and the rupee text is displayed. This can be used to skip triggering the barrier that forms around the darknut. Use the ball & chain to break both suits of armor on the right, then stand on the part of the floor shown in the video below. Aim the boomerang just left of the column, then release it without targeting. Pull sword with B, target after the sword is out, then hold A to begin charging a jumpstrike before the rupee gets back to Link. Some strange side effects of this skip include the darknut music playing until Link exits the castle, an invisible damage barrier appearing near the middle of the room, and the darknut sometimes teleporting towards Link.

Link to original video

First Darknut room

Strat by SVA161620

For the first phase sword roll towards him, rollstab and then slash him 4 times, then make him block again and do 6 slashes to knock off his armour. Now run into him to block the sword, wait for him to pull out his second sword and slash him twice. Now use B&C to finish him off with 3 hits. To get the perfect boomerang angle stand inside the diamond and aim towards the pillar, when camera pans back just throw the boomerang and it will hit the torch.

Dynalfos with bomb

Once you skip the cutscene pull out a bomb and run towards the Dynalfos, when they notice you stutter for a while and then throw the bomb at them. They will run away from the bomb when it's on the floor after a while hence why you wait for a bit.

Alternatively you can just lure them to you and pull a bomb as soon as they start running towards you. When they are close, slash the bomb or blow it up by throwing the gale. This can be up to 0.3s faster than throwing the bomb, however there's a very rare occurrence where the Dynalfos will clip you out of bounds through the door, so do this method with caution.

Dynalfos without bombs

Method 1:

Quickspin the Dynalfos, then stand right next to the left one. When they recover, chain stabs to kill both.

Method 2:

Run up to the Dynalfos and turn to the right. Perform neutral slashes 7 times, then quickspin to kill both.

Comparison:

Aeralfos fight with ball & chain

Discovered by Dragonbane and Garm

Before getting to the Small Key chest you have to fight Aeralfos. The fastest way to do this includes using the Ball&Chain. Enter the Barrier and skip the cutscene as soon as possible. Hold L and mash the Boomerang button to make Aeralfos shield and instantly clawshot him down.
While the clawshot is in the air, equip B&C over the boomerang and swing it. After you hit Arealfos 5 times, throw it in his direction - it will kill Aeralfos on its way back if done correctly.

Block room shortcut

As long as you don't stand on unstable blocks for too long you can just cut right across the room. To do this roll across and show in the video making sure you go diagonally so you don't stay on unstable blocks.

Last group of lizalfos (bomb arrow)

This only works for the last group of Lizalfos as they are closer together than the group below. Before spawning the barrier simply bomb-arrow the wall next to the right Lizalfos and it will kill both of them making the barrier disappear before you watched the cutscene to spawn it. This can be used in All Dungeons and 100%

Skip final tower dynalfos with Spinner Barrier Clip

Discovered by ZachLink99

Using the damage invincibility granted by getting hit by the barrier, it's possible to clip through onto the spinner track with a spinner attack, skipping the Dynalfos. Voiding out on the spinner tracks will respawn Link at the base of the tracks behind the Dynalfos and outside of the barrier trigger so you can safely go onto the tracks again.

Skip final Darknut fight

Discovered by DF6780

It is possible to skip the final Darknut fight by clawshotting the lantern right next to the boss door in Hyrule Castle. Get off the spinner early and position yourself carefully right before the barrier trigger. Clawshot the lantern and open the door.