There is a variety of toggles available to accomodate the different settings the randomizer offers. The settings are arranged to mimic the current GUI of the randomizer.
The presets icon is a customizable preset loader. Cycle through the presets with left click and load with right click (some settings might require an extra right click since they depend on other settings).
To customize the presets, please override scripts/user_presets.lua and edit to your liking. I hope the structure is fairly straightforward. Which setting number corresponds to which setting can be found in items/options.json (0 based indexing).
This tab contains most of the important settings that determine how "open" a randomizer seed is (see wiki).
This setting determines if you can leave the Kokiri Forest without beating the Deku Tree.
You will find the Kokiri Sword and Slingshot early on to beat the Deku Tree before leaving Kokiri Forest.
You can leave Kokiri Forest but will need the Kokiri Sword and Deku Shield to go to the Deku Tree.
You can immediately leave Kokiri Forest and go to the Deku Tree.
This setting determines the behaviour of the Kakariko Gate to Death Mountain Trail as child as well as the Happy Mask Shop.
The gate is always open. The Happy Mask Shop opens once you obtain Zelda's Letter.
Both the gate and the Happy Mask Shop open once you obtain Zelda's Letter.
Both the gate and the Happy Mask Shop are closed until showing Zelda's Letter to the guard.
This setting determines whether the Door of Time starts open or closed.
You will need to find Song of Time to open the Door of Time and unlock the ability to time travel.
The Door of Time starts open and you can immediately switch between ages.
This setting determines whether Zoras Fountain starts open or closed.
You can find Rutos Letter and open Zoras Fountain by moving King Zora.
Zoras Fountain can be accessed as adult without handing in Rutos Letter. Child access to the fountain is unchanged.
Rutos Letter can no longer be found, but Zoras Fountain can be accessed without moving King Zora for both ages.
This setting determines the state of the.
You will have to rescue all 4 carpenters.
You only need to free one carpenter (F1 North).
The carpenters start free and the Fortress is immediately accessible.
This setting determines what is needed to trigger the rainbow bridge in front of Ganons castle.
Nothing required, bridge is always open
Light arrows, shadow medallion, and spirit medallion required
Variable amount of stones required
Variable amount of medallions required
Variable amount of medallions and stones required
Variable amount of Gold Skulltula tokens required
This setting determines how many (if any) of the items specified in Rainbow Bridge Requirement are needed.
Increment or decrement the number required.
This setting determines how many trials are needed to dispel the barrier in Ganons castle.
Increment or decrement the number of trials needed.
If trials are set to at least 1, Ganons castle will show locations for the trials. When you clear a trial, mark that location as cleared. Once the number of cleared trials is greater than the number of required trials, the last chest will appear available.
I have not found a good way to represent that a trial started as dispelled.
This tab contains more settings about the world structure of a randomizer seed (see wiki).
A lot of these settings will not have any influence on the standard variant. To get the full benefits, you will need to use the entrance randomizer variant.
This setting determines which age you started as.
Link started as child.
Link started as adult.
If you have selected 
or collected an 
and 
the checks for the other age will unlock.
No interiors are shuffled.
Interiors except Link's House, Temple of Time, Kak Potion Shop, and Windmill are shuffled.
All interiors are shuffled.
Grottos and graves are not shuffled.
Grottos and graves are shuffled.
Dungeons are not shuffled.
Dungeons are shuffled.
Overworld entrances are not shuffled.
Overworld entrances are shuffled.
Entrance pools are not mixed.
Shuffled entrances that are not Overworldare mixed.
All shuffled entrances are mixed.
Owl drops are not shuffled.
Owl drops are shuffled.
Warp song destinations are not shuffled.
Warp song destinations are shuffled.
Spawns are not shuffled.
Child spawn is shuffled.
Adult spawn is shuffled.
Both spawns are shuffled.
This setting determines if Bombchus are considered by the logic.
Bombchus will never be considered by the logic and can be used to sequence break bomb locations.
Bombchus can be used as regular explosives like bombs in logic.
This tab contains settings about additional items being shuffled (see wiki).
This setting determines if Shopsanity is active.
The shops have their regular items.
A varying amount of items in the shops is randomized.
This setting determines which Gold Skulltulas are shown, especially useful for Tokensanity.
Gold Skulltulas will be hidden.
Gold Skulltulas in dungeons will be displayed.
Gold Skulltulas in the overworld will be displayed.
All Gold Skulltulas will be displayed.
This setting determines if all Deku Scrubs have randomized items.
Only the three Deku Scrubs that give actual items in the vanilla game can have random items.
All Deku Scrubs can have random items.
This setting determines if cows have randomized items.
The cows just give milk when Eponas song gets played.
The cows will give a random item the first time Eponas song gets played.
This setting determines if the Kokiri Sword gets shuffled.
The Kokiri Sword is not shuffled and will be captured in the corresponding chest by default.
The Kokiri Sword is shuffled into the item pool and will not be captured.
This setting determines if the Ocarinas get shuffled.
The Ocarinas are not shuffled and will be captured in the corresponding chests by default.
The Ocarinas are shuffled into the item pool and will not be captured.
This setting determines if the Weird Egg gets shuffled.
The Weird Egg is not shuffled and will be captured in the corresponding chest by default.
The Weird Egg is shuffled into the item pool and will not be captured.
This setting determines if the Gerudo Card gets shuffled.
The Gerudo Card is not shuffled and will be captured in the corresponding chest by default.
The Gerudo Card is shuffled into the item pool and will not be captured.
This setting determines if Magic Beans are shuffled.
Magic Beans are not shuffled and will be captured in the corresponding chest by default.
The Magic Beans are shuffled into the item pool and will not be captured.
This setting determines if Medigoron, Granny's Potion Shop, and Carpet Salesman items are shuffled.
Expensive Merchants are not shuffled.
Expensive Merchants are shuffled and the merchants sell one randomized item each.
This setting determines if the rewards for the five grey note songs (besides Song of Storms) are shuffled.
Frog Song Rupees are not shuffled.
Frog Song Rupees are shuffled and playing the songs rewards one randomized item each.
This tab contains settings about dungeon items being shuffled (see wiki).
In non keysanity variants, all of these settings will be forced to Off, effectively giving you every key. Can be used with the keysanity variants in mystery settings, so you don't have to mark all keys manually.
The individual keycounts will be remembered, should you turn this on by accident. Just turn it off again to restore your previous keycounts.
This setting determines if Small Keys are shuffled (non keys variants will force this off).
Small Keys are not shuffled and will always be considered at their maximum.
Small Keys are shuffled and need to be tracked by the user.
This setting determines if Thieves' Hideout Keys are shuffled (non keys variants will force this off).
Thieves' Hideout Keys are not shuffled and will always be considered at their maximum.
Thieves' Hideout Keys are shuffled and need to be tracked by the user.
This setting determines if Boss Keys are shuffled (non keys variants will force this off).
Boss Keys are not shuffled and will always be considered active.
Boss Keys are shuffled and need to be tracked by the user.
This setting determines if Ganon's Boss Key is shuffled (non keys variants will force this off).
Ganon's Boss Key is not shuffled and will always be considered active.
Ganon's Boss Key is shuffled and needs to be tracked by the user.
This tab contains some additional settings mostly for convenience (see wiki).
This setting determines if visiting Zelda in the Hyrule Castle Gardens is skipped.
Zelda has to be visited like in the vanilla game.
Zelda already counts as visited, allowing dependent events to unfold.
This setting determines if all masks will be available once the Happy Mask Shop is open.
The mask quest has to be completed step by step like in the vanilla game.
All the masks will be available once the Happy Mask Shop is open.
Plants all 10 magic beans in their soft soil spots and allows adult to ride them.
This setting determines when hintable locations will show up on the map (see wiki).
Hintable locations will never show up on the map.
Hintable locations will show up on the map if you have 
.
Hintable locations will show up on the map if you have 
.
Hintable locations will always show up on the map.
This setting determines how much damage you take (see wiki).
Damage is halved.
Damage is normal.
Damage is doubled.
Damage is quadrupled.
Damage kills you in one hit.
Changes Ice Arrows to Blue Fire Arrows and allows them to melt red ice (and mud walls out of logic).
This setting determines if logic expects the player to have an ocarina and the Sun’s Song to get Gold Skulltula locations that are only found at nighttime.
Sun's Song is not expected by logic.
Sun's Song is expected, but locations will show as sequence breaks.
This tab contains a list of the logic tricks that can be enabled in the randomizer (see wiki).
The tracker will show the tricks from this list as sequence breaks, even if they are turned off. Enabling them will show them as in logic instead, reflecting your chosen logic as closely as possible.