Save at the Mine Entry statue and activate BiT. Perform a BiTWarp using the Upper Academy statue. Link will land far OoB, so make your way back to the entrance to the Lanayru Caves. From here, you can go left to the Lanayru Gorge or right to the Western Desert.
The technoblin fight before the Hook Beetle is dependent on where the Technoblins move during the cutscene when the timeshift stone activates. If the one pictured during the cutscene walks towards the boundary of the timeshift area, a Skyward Strike will knock him out of the area. If the one in the cage stays in the cage, a bomb thrown to the front-right corner of the cage cause him to run back into the cage, but he will still be in range of the bomb blast. Combining these two strategies is the fastest fight.
As an added time save, if you front-hop jumpslash into the cutscene trigger as the end-fight cutscene plays, you'll immediately trigger the Hook Beetle cutscene, skipping a small cutscene and running over to the rescued robot.
It is possible to skip going through the Temple of Time area to reach the Northeastern desert area. There are two methods for doing so; the current method used in runs is the Ampilus Shell Trick method. For the old BiTWarp method, see Unused Strategies.
By luring an Ampilus to the proper spot, it is possible to kill it so that its shell lands up against the metal wall. You can then climb on the shell and climb over the wall to the Stone Cache.
The setup is somewhat precise; after the second shield bash, the Ampilus should be next to the wall at about a 45 degree angle.
After the cutscene where you obtain the Goddess Harp, it is possible to skip the Fi text by sidehopping or backflipping out of the trigger before it starts. Hold Z while selecting cancel at the save prompt, then mash or time the backflip. The window for this trick is only 2 frames, so it is easy to miss.
An amusing side effect of this trick is that your main quest dowsing option will remain as Zelda's face for the rest of the game. This does not affect the dowsing functionality.
In Skipper's Retreat, there is a Deku Baba guarding a clawshot target. If you clawshot to the left of the target, the Baba will be distracted long enough for you to clawshot the target and then clawshot away, saving using the slow Hook Beetle to kill the Baba.
By running to the left edge of the first Beamos that spawns, you can fit through the gap between the door frame and the beamos and thus avoid fighting it.
In the short hallway with several Deku Babas, you can easily avoid them by pausing briefly before continuing.
In the last section of the stronghold, you can skip a short cutscene that looks at a whip lever by jumpslashing over the trigger as you go through the doorway.
There are three places during the minecart escort where you can intentionally void to move the minecart forward.
After the first main room with the Technoblins and the Deku Babas, running off the edge right after you hit the switch will respawn the minecart slightly forward. This void saves at most 2 seconds.
In the long room with the giant vine wall, when you reach the end of the vines there are two platforms that appear. Wait for the second platform to appear and then jump over the wall next to it. When you respawn you'll be on a platform above next to a switch. This void saves about 10-15 seconds.
After opening the gate with the whip, the passage way turns twice and then has a pit. If you jump into that pit, the minecart will warp forward when you respawn there. This void saves about 6-8 seconds.
At the end of the escort, there is a section where you are supposed to use the beetle to grab a bomb and blow up some rocks. You can make it slightly faster by putting down your own bomb, backing up and quickly using the Beetle to carry your bomb to the rocks.
After reaching the Lanayru Desert, save at the West Desert statue and activate BiT. Perform a BiTWarp with the Upper Academy statue. You will appear next to a chest in the Northern Desert, thereby skipping the Temple of Time area.
This is not used because the Ampilus Shell version of this skip is faster by about 50 seconds.
After obtaining the Gust Bellows, save at the Lanayru Gorge statue and activate BiT. Perform a BiTWarp using the Upper Academy statue. This will put you on top of the cliff. From here, make your way over to the Tree of Life and activate the Timeshift Stone to get the seedling. You can get back across the gap by deathwarping.
This is not used in runs because the BiTLoading version of this trick is faster.
After obtaining the Life Tree Seedling, run back to where the bridge was and use the bow to shoot the timeshift stone. The hitbox for the stone is strange; you need to aim higher and more to the right than it seems.
This is not used because the current route gets the Life Tree Seedling via BiT.