This is the complete step by step walkthrough for Wabewalker (Interactive Fiction).

Warning: You may be one creative insight away from solving a puzzle! Continue reading only if you are absolutely stuck, and are willing to spoil a surprise!

Note #1: There is an in-game hint system. Type HINT to get a nudge in the right direction.

Note #2: I will include an explanation at the bottom of this document about the puzzle design and how the player was expected to figure things out.

And without further ado, here is the Wabewalker walkthrough.

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ABBREVIATIONS:
Avalokitesvara Shrine = Ava Shrine
Altar of Samantabhadra = Altar of Sam
Butsudan of Kannon = Butsudan

BEGINNING:
Go to the Cafe and walk north.
Die.

HALLWAY PUZZLE:
Press rewind in the Master Bedroom.
Go to the Hallway and pull the lever.
(The lever will activate the laundry chute, causing the crumpled scroll to drop down into the closet. This worked because we revived the orange samue, and green and purple are also alive.)

COURTYARD PUZZLE (RA CHANT):
Go to the Master Bedroom and press fastforward.
Go to the Courtyard and open the door.
(Orange is dead, green and purple are alive.)
Enter the closet and examine the dusty scroll.

POND PUZZLE (GOLDEN FISH SYMBOL):
Pick up the kernel of corn in the Closet.
Go to the Landing and pick up the fishing pole.
Put the corn on the hook.
Go to the Pond.
Go fishing / Cast the line.
Wait. Wait. Wait.
Reel in the line.

HALFWAY UP MOUNTAIN PUZZLE (ENDLESS KNOT SYMBOL):
Go to the Altar of Sam and walk south.
Die.
Go Halfway up the Mountain and examine the sign.

CREAKY DECK PUZZLE (GO CHANT):
Go to the Creaky Deck and push the button.
Examine the frosty scroll.
(Orange and green are dead, and purple is alive.)

HAMLET PUZZLE (SHI CHANT):
Go to the Island (east of Bottom of the Mountain) and pull the tassel.
Rewind.
Go to the Hamlet (west of Top of the Mountain)
(Orange is dead, green and purple are alive.)
Ask about the scroll.
Say yes to the hypnosis.
Go to the Cafe and go north, then east, then south, then north, then west.
Examine the stained scroll.

TRINKET SHOP PUZZLE (YU CHANT):
Go to the Island, pull the tassel, and press play.
Rewind.
Go to the Altar of Sam, and walk south. Die.
Rewind.
Go to the Trinket Shop and open the jewelled case.
(All three are alive.)
Examine the crumpled scroll.

SAND EXHIBIT PUZZLE:
Go to the Overlook.
Take a bird, or move the curtain.
Die.
Go to the Sand Exhibit and open the door.
(Orange and green are alive, purple is dead.)

AVA SHRINE PUZZLE (JI CHANT):
Go south to the Ava Shrine and rewind.
Press play.
Go to the Island, pull the tassel, and fastforward.
Go to the Overlook, take a bird, and die.
Rewind.
Open the safe.
(Orange is alive, green is dead, purple is alive. Possibly the hardest puzzle in the game.)
Examine the smooth scroll.

LOUNGE PUZZLE (OM CHANT):
Press play at the Ava Shrine.
Go to the Island, pull the tassel, and rewind.
Go to the Overlook, take a bird, and die.
Go to the Lounge, and open the safe.
(Orange and green are alive, purple is dead.)
Examine the faded scroll.

STUDY PUZZLE (NI CHANT):
Go to the Cafe and walk north. Die.
Rewind.
Go to the Study and open the safe.
(Orange and green are alive, purple is dead.)
Examine the fancy scroll.

ALTAR OF SAM PUZZLE:
Go to the Master Bedroom and fastforward.
Go to the Altar of Sam and open the door.
(Orange is dead, green is alive, purple is dead.)

MANNEQUIN ROOM PUZZLE (LOTUS FLOWER SYMBOL):
From the Altar of Sam, go west and then north.
Examine the mannequin.
Take the parchment.
Go south and east to the Altar of Sam.
Examine the parchment.
(You can examine the parchment because you are not in the dark.)

MEDITATION PUZZLES:
Meditate at the Altar of Sam.
Visualize the Lotus Flower.
Chant, one at a time: GO JI GO JI YU RA SHI OM JI GO JI NI RA SHI
Go to the Master Bedroom and rewind.
Press play.
Go to the Sand Exhibit and open the door.
Go south to the Ava Shrine and meditate.
Visualize the Endless Knot.
Chant, one at a time: NI YU JI OM OM SHI SHI JI SHI RA OM GO SHI SHI
Rewind and press play.
Go north all the way to the Butsudan.
Meditate.
Visualize the Golden Fish.
Chant, one at a time: OM RA YU NI SHI YU RA GO NI YU JI SHI YU RA
(Here you are told the year that the Wabewalker wrote Bunraku. A unique year is generated for each playthrough. You will need to remember this number to complete the game. There is one ending, but there are three small variations depending on which of the three cloaked figures you answer to. This walkthrough will detail the Overlook ending.)

END:
Go to the Overlook and take a bird.
Enter the year.
The End!

SCORE CARD:
Examine the faded scroll (+10)
Examine the fancy scroll (+10)
Examine the frosty scroll (+10)
Examine the crumpled scroll (+10)
Examine the smooth scroll (+10)
Examine the dusty scroll (+10)
Examine the stained scroll (+10)
Read the book in the Tea Room (+5)
Examine the cryptogram (+5) 
Open the door in the Courtyard (+5)
Put the corn on the hook of the fishing pole (+5)
Catch the koi fish  (+10)
Pull the lever in the Hallway (+5)
Pull the tassel on the Island (+5)
Examine the wooden sign halfway up the mountain (+10)
Open the door in the Sand Exhibit (+5) 
Open the door in the Altar of Sam (+5) 
Examine the parchment (+10)
Examine the business card (+5)
Be invited into Hisachi Ichiro's House  (+5)
Call Kimi in the Sitting Room  (+5)
Press the play button on the television in the theater (+5)
Meditate and hear the secret at the Ava Shrine (+10)
Meditate and hear the secret at the Altar of Sam (+10)
Meditate and hear the secret at the Butsudan of Kannon (+10)
Answer the cloaked figure with the correct year (+10)

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NOTES ON PUZZLE DESIGN:

With some exploring, the player comes across many metal panels that have orange, green, and purple bulbs. The significance of the colors is unknown, but surely they are the key to unlocking whatever door or device they are found near. A keen player may also notice that there is a Chippendale mirror in each of the three worlds of the game; and depending on the world, the reflection reveals different colored clothing: orange, green, and purple. This is the "Aha!" moment of Wabewalker. It can be called the "big puzzle" that is solved with lateral thinking.

The bulbs directly correspond to your samue in the three worlds. If you die in your orange samue, the orange bulbs will stop glowing. When you rewind the television in the next world, the orange bulb will begin to glow again, because they were brought back to life, as seen on screen.

With this insight, the player can begin to tackle the panel puzzles one by one. As the player progresses, they will discover and memorize three sacred symbols, and also seven sacred words on seven scrolls. A phone number is found on a business card at the Balcony, and using the landline in the Sitting Room, the player will learn from Kimi that certain mantras are suited for certain locations. Thus we may piece together what these sacred words are used for.

These mantras can be decyphered using the cryptogram found in the Study. Each scroll contains a drawing of some sort, that will be found in the cryptogram. If the player found the secret Theater and listened to the film closely, they will also piece together which sacred symbol should be visualized while chanting each mantra.

By combining the wisdom gathered from all three worlds, the player is equipped to meditate at each shrine, and receive the secret of Bunraku.