Basic route (transcripted from GameFAQs)

LV1
up 2x
left 2x
enter building in north, take mg
left 2x
enter building in north, take iron rod
right 2x
down 2x along edge
kill guard, use iron rod on rock
keep going for lost key
up 2x
left
use lost key on building in north
get id card from top right corner and exit
left 
down 2x
right
use ID card on machine
<right for medkit>
take the bridge below
left
take mg ammo, enter house, talk to the guy
backtrack to level start
down-right
use wire cutters on fence and enter
iron rod on sewer entrance
up
left
up 2x
talk to officer
down
take first right (where the blocked pass was)
right (bottom exit)
right
take wrench from bottom left room
backtrack left to medkit at intersection
go to left edge and then up
exit thru stairs
down
left 4x
wrench on track sitch
right 4x
down
use bazooka in rubble to the right of the tank, get key
down
upper right
use big key on gate
TANK (follow the road. tanks take 15 ullets)
take small key, use on button on top, take mg ammo
down
left 3x
down
right
down
keep going down until you reach overworld
left 3x
up by stairs
take hole on north
small key on door and go thru
take scientist suit from upper right corner
exit to overworld
down
right
up 3x
tank boss fight

LV2
right
talk to man in bottomleft
up
right
laundry key on building with sheets
talk to woman
!!!DONT TALK FROM LEFT!!!
take sheet from north part and exit
left 3x
enter shop
talk to counter girl and get food parcel
right 3x
down
enter hotel
read poster to the right
equip food parcel
talk to the lady and then to the upper left bed
exit hotel
up
left 3x
back to shop
talk to lady again and exit
down
equip canned food and give it to the guy in bottom left
left
up
left
look at storm drain to the right of 003
examine doors to 003
enter 002
talk to mechanic
take monkey wrench from top-left and leave
left 2x
enter radio tower
equip sheet and talk to guy
talk again after force exiting, get key, exit
3x right
enter canteen in north part
talk to alone guy and exit
down
right 4x
enter building with storage key and take file and exit
left
up 2x
enter building
use monkey wrench on pipe in bottom left and exit
down 2x
left 3x
up 
left 3x
enter sewers in bottom right corner
use file on gate
take first up and then a down (towards bottom right corner)
go wherever the water isnt and get the hangar key
exit sewers
right 2x
enter hangar 003
take the pickaxe and leave
right
enter canteen basement
use pickaxe on hole to the right of the stairs

LV3
flip switch directly up
go to bottom-right and take the upper path left
follow along and at intersection flip the switch to the north
go back to the fork and take the bottom path
down
take the bottom route and go right
go up (or bottom first for medkit)
examine statue
backtrack to the first room
take top right route (thru the gate that was closed earlier)
keep going until you reach a fork
take a left - there'll be a medkit, mg ammo and a switch to flip
backtrack to start again
go to where the long ass split was (with 2 spiders) and take 2nd from bottom route now
right
up
leave through top left corner
follow along until room with mg ammo and medkit
go to bottom right and follow the path north
take the cogwheel and leave south
use cogwheel on mechanism
go to topleft corner of the room and take the middle exit north
use key on door
examine the skeleton and leave south
take leftmost way up this time
use key on door
take top route
left 3x
take lockpick
right
take first bottom and follow along until the switch, flip it
right 2x
examine coffin in top right
right
take the bottom fork this time
keep going left until you reach an examinable stream of water - use plank
down and flip the final switch
go back to fork and take top again
left 2x
use lockpick on door
follow path till exit - it'll be half-circle brown door

LV4
reach intersection
up 3x
left 2x
up
have the chef announce dinner (walk up to him)
down
left
get key from room
up
right
trigger cutscene in second room
right
take metal detector from the north room
go south until you reach blue floor room
left through narrow gap
use key on door
get oil (passage above gray guard) and wire (bottom left)
right
south 2x
left
use oil on machine in topleft corner
up through topright corner
at this point just look at this map https://gamefaqs.gamespot.com/gbc/581565-hands-of-time/map/7578?raw=1
when in the patch of flowers (the yellow tiles) pull out the metal detector and walk around until you pick up the key
go back the SAME WAY you came in
right
up
right
talk to the guys in top right corner so that they move away
up
take the screwdriver
left
up 2x
use piece of metal on silver door to the right
examine desk
up
use piece of paper on blue door
use screwdriver and wire on generator
take the hole up

LV5
!!!INSTADEATH FANS!!!
right and up, examine body
take mg ammo to the left
up
left
get car keys
right
up
get geiger counter (the cup looking thing)
down 2x
left
up
use screwdriver on elevator panels on top of the room
talk to worker when he's at the elevator
up
take 2nd vent to the right
examine alarm button
get the id card from the room
examine computer
left
down 2x
left thru first blue vent
down at intersection
left
use id card on blue door
get both items
go north to the big vent area and take a left
up
left
up, left, left, down
down
take laser gun
up
up, right, right, down
right
up, up, right
take bomb
up
up, right
use gas tank after you enter the screen
left
down 2x
right 2x
use testing tube on puddle of acid (bottom right corner)
left
up 2x
enter room to the left (arrows on the floor), take storage key
down
use keys on blue door to the right
take borer
left
use borer and acid on door to the north
use when ! appears (top part of the screen)
go north (avoid turrts and blinking floors)
use burner on barrier
use bomb on machine
take a left and go to left to exit

LV6
!!!ENEMIES DONT ATTACK YOU WHEN IN MECH SUIT!!!
!!!COLLAPSING FLOORS!!!
!!!DEADLY SLIME!!!
down 3 platforms
right 1 platform
down 3 platforms
left 1 platform
take mech suit (no dmg from slime)
right 1 platform
up 4 platforms
right 2 platforms
up 1 platform
right 1 platform
up 1 platform
take sprayer (examine blue tanks to refill)
down 1 platform
left 1 platform
down 1 platform
left 2 platforms
down 4 platforms
right 2 platforms
up 1 platform
left 1 platform
up 1 platform
right 1 platform
get medkit if below full health
up 1 platform
right 1 platform
spam sprayer on boss
right 1 platform
down 3 platforms
right 1 platform
up 1 platform
right 2 platforms
up 1 platform
left 2 platforms
up 2 platforms
left 1 platform
up 2 platforms
right 2 platforms
follow along to end

LV7 SILNIE POPIERDOLONY DOX ZNALEZIONY W MIRAGE
!!!SKELETONS ONLY SHOOT SIDEWAYS!!!
!!!BOTTOM PIXEL OF GRASS CANT BE SHOT BY SKELLYS!!!
talk to cemetery keeper
keep going up until c-shield
right
up and left
first up
right
up two levels
talk to the red guy to the right, MASH B AFTERWARDS FOR THE KILL
examine pot for silver
up
left
up 1 level
right
up 3 levels
left
up
up 2 levels
left
up 1 level
talk to keeper
backtrack to the red guy
down 2 levels
left
down
right
down 4 levels
right
enter house
use silver on fireplace
backtrack to the blue mofo ffs and talk to him
right
up one level
right
enter crypt in south
yeet the werewolf with the old gun and talk to girl
go back to the blue guy i shit you not, he'll give you shears
and now to the mf'in red guy again
from there down two levels
left
use shears and left
left
go to upper right corner
right
talk to green vampire
exit out
right
up 4 levels
up
left
up one level
examine first bush on your left
back to the vampire
exit out
at this point press select to fire up the map and go to the fucking crypt
examine top left corner
up and right
follow the route until fork - go up
keep going until girl
exit out
you missed the blue guy? youre going back there
<at this point author of the route gave up so directions might be half assed>
left 3x
enter mausoleum
get the book and gtfo
go back to the bitch ass grill
exit out
left
down 3x
right 3x
get facetime with your dad
go right and yeet the demon

LV8
talk to woman south
down
right
up
take bell
down
right
pick up log and axe
left 2x
down
right
use axe on tree
talk to lady
go down and take bell
left
pick up branch from bottom of the screen
left
up
down thru left
take life vest
up
EQUIP LIFE VEST
right
take bell
left
approach drowning man from bottom and use branch on him
EQUIP LIFE VEST
down
right
up 2x
right
use key on house
use log on man
take bottom right exit
take bell
go back in house and talk to man
again right exit and use oars on boat
take left on split (2nd boat screen)
enter cave
take bell and talk to vampire
go back across the river and thru the house
left
down 2x
right
use baby on woman
left 2x
up
down thru left
enter church in bottom left
place all bells back
up to the right side
walk into slimes face and mash B
take relic and exit church
backtrack to the vamp island
use rope on hole
use relic on building

LV9
!!!TELEPORTERS ARE 1-4 RIGHT TO LEFT!!!
left
right thru down
keep going until you see a black tinted walking robot, kill it and take explosive shell
backtrack to teleporters and enter #1
right
take laser gun
left (not the one you came in)
keep going left
up
take card
down
take bottom route
right until you get documents
backtrack to tele and take it
activate and take #3
follow route until youre at left edge and theres long wall of cabinets at the bottom
take the keycard above the cabinets and go left
take the blue hallway, kill cyborg and take explosive shell
backtrack to tele and take #4
take left at intersection to reach the cyborg and yeet the shell
go back to intersection, go south and yeet the card
back to tele and take #2
down
take the hall up
use explosive shell on each blue machine
pop the champagne

My rough route (based on GameFAQs walkthrough)

Updated route (by Dvark)

LVL1
up 2x
left 2x
enter building in north, take mg
left 2x
enter building in north, take iron rod
right 2x
down 2x along edge
kill guard, use iron rod on rock
keep going for lost key
up 2x
left
use lost key on building in north
get id card from top right corner and exit
left
down 2x
right
use ID card on machine
<right for medkit>
take the bridge below
left
take mg ammo, enter house, talk to the guy
backtrack to level start
down-right
use wire cutters on fence and enter
iron rod on sewer entrance
up
left
up 2x
talk to officer
down
take first right (where the blocked pass was)
right (bottom exit)
right
take wrench from bottom left room
backtrack left to medkit at intersection
go to left edge and then up
exit thru stairs
down
left 4x
wrench on track sitch
right 4x
down
use bazooka in rubble to the right of the tank, get key
down
upper right
use big key on gate
TANK (follow the road. tanks take 15 ullets)
take small key, use on button on top, take mg ammo
down
left 3x
down
right
down
keep going down until you reach overworld
left 3x
up by stairs
take hole on north
small key on door and go thru
take scientist suit from upper right corner
exit to overworld
down
right
up 3x
tank boss fight

LV2
right
talk to man in bottomleft
up
right
laundry key on building with sheets
talk to woman
!!!DONT TALK FROM LEFT!!!
take sheet from north part and exit
left 3x
enter shop
talk to counter girl and get food parcel
right 3x
down
enter hotel
read poster to the right
equip food parcel
talk to the lady and then to the upper left bed
exit hotel
up
left 3x
back to shop
talk to lady again and exit
down
equip canned food and give it to the guy in bottom left
left
up
left
look at storm drain to the right of 003
examine doors to 003
enter 002
talk to mechanic
take monkey wrench from top-left and leave
left 2x
enter radio tower
equip sheet and talk to guy
talk again after force exiting, get key, exit
3x right
enter canteen in north part
talk to alone guy and exit
down
right 4x
enter building with storage key and take file and exit
left
up 2x
enter building
use monkey wrench on pipe in bottom left and exit
down 2x
left 3x
up
left 3x
enter sewers in bottom right corner
use file on gate
take first up and then a down (towards bottom right corner)
go wherever the water isnt and get the hangar key
exit sewers
right 2x
enter hangar 003
take the pickaxe and leave
right
enter canteen basement
use pickaxe on hole to the right of the stairs

LV3
flip switch directly up
go to bottom-right and take the upper path left
follow along and at intersection flip the switch to the north
go back to the fork and take the bottom path
down
take the bottom route and go right
go up (or bottom first for medkit)
examine statue
backtrack to the first room
take top right route (thru the gate that was closed earlier)
keep going until you reach a fork
take a left - there'll be a medkit, mg ammo and a switch to flip
backtrack to start again
go to where the long ass split was (with 2 spiders) and take 2nd from bottom route now
right
up
leave through top left corner
follow along until room with mg ammo and medkit
go to bottom right and follow the path north
take the cogwheel and leave south
use cogwheel on mechanism
go to topleft corner of the room and take the middle exit north
use key on door
examine the skeleton and leave south
take leftmost way up this time
use key on door
take top route
left 3x
take lockpick
right
take first bottom and follow along until the switch, flip it
right 2x
examine coffin in top right
right
take the bottom fork this time
keep going left until you reach an examinable stream of water - use plank
down and flip the final switch
go back to fork and take top again
left 2x
use lockpick on door
follow path till exit - it'll be half-circle brown door

LV4
reach intersection
up 3x
left 2x
up
have the chef announce dinner (walk up to him)
down
left
get key from room
up
right
trigger cutscene in second room
right
take metal detector from the north room
go south until you reach blue floor room
left through narrow gap
use key on door
get oil (passage above gray guard) and wire (bottom left)
right
south 2x
left
use oil on machine in topleft corner
up through topright corner
at this point just look at this map https://gamefaqs.gamespot.com/gbc/581565-hands-of-time/map/7578?raw=1
when in the patch of flowers (the yellow tiles) pull out the metal detector and walk around until you pick up the key
go back the SAME WAY you came in
right
up
right
talk to the guys in top right corner so that they move away
up
take the screwdriver
left
up 2x
use piece of metal on silver door to the right
examine desk
up
use piece of paper on blue door
use screwdriver and wire on generator
take the hole up

LV5
!!!INSTADEATH FANS!!!
right and up, examine body
take mg ammo to the left
up
left
get car keys
right
up
get geiger counter (the cup looking thing)
down 2x
left
up
use screwdriver on elevator panels on top of the room
talk to worker when he's at the elevator
up
take 2nd vent to the right
examine alarm button
get the id card from the room
examine computer
left
down 2x
left thru first blue vent
down at intersection
left
use id card on blue door
get both items
go north to the big vent area and take a left
up
left
up, left, left, down
down
take laser gun
up
up, right, right, down
right
up, up, right
take bomb
up
up, right
use gas tank after you enter the screen
left
go back to starter area (should be):
down 2x
right 2x
use testing tube on puddle of acid (bottom right corner)
left
up 2x
enter room to the left (arrows on the floor), take storage key
down
use keys on blue door to the right
take borer
left
up
use borer and acid on door to the north
use when ! appears (top part of the screen)
go north (avoid turrts and blinking floors)
use burner on barrier
use bomb on machine
take a left and go to left to exit

LV6
!!!ENEMIES DONT ATTACK YOU WHEN IN MECH SUIT!!!
!!!COLLAPSING FLOORS!!!
!!!DEADLY SLIME!!!
down 3 
right 
down 
left 
take mech suit
right
up 4 
right 2 
up 
right 
take sprayer (examine blue tanks to refill)
go back to mech suit place blue tank
right 2 
up
left
up
right
get medkit
go to boss
spam sprayer on boss
right
down
right at intersection 
follow path
right at next intersection
left at next intersection
keep going up all the time
follow along to end

LV7 SILNIE POPIERDOLONY DOX ZNALEZIONY W MIRAGE
!!!SKELETONS ONLY SHOOT SIDEWAYS!!!
!!!BOTTOM PIXEL OF GRASS CANT BE SHOT BY SKELLYS!!!
talk to cemetery keeper
keep going up until c-shield
right
up and left
first up
right
up two levels
talk to the red guy to the right, MASH B AFTERWARDS FOR THE KILL
examine pot for silver
up
left
up 1 level
right
up 3 levels
left
up
up 2 levels
left
up 1 level
talk to keeper
backtrack to the red guy
down 2 levels
left
down
right
down 4 levels
right
enter house
use silver on fireplace
backtrack to the blue mofo ffs and talk to him
right
up one level
right
enter crypt in south
yeet the werewolf with the old gun and talk to girl
go back to the blue guy i shit you not, he'll give you shears
and now to the mf'in red guy again
from there down two levels
left
use shears and left
left
go to upper right corner
right
talk to green vampire
exit out
right
up 4 levels
up
left
up one level
examine first bush on your left
back to the vampire
exit out
at this point press select to fire up the map and go to the fucking crypt
examine top left corner
up and right
follow the route until fork - go up
keep going until girl
exit out
you missed the blue guy? youre going back there
left 
right
up
left until entering mausoleum
get the book and gtfo
go back to the bitch ass grill
exit out
up to the left
down
right
down 3 levels
left
down 1 level
right
down on right side
down all the way
go right and yeet the demon with book

LV8
talk to woman south
down
right
up
take bell
down
right
pick up log and axe
left 2x
down
right
use axe on tree
talk to lady
go down and take bell
left
pick up branch from bottom of the screen
left
up
down thru left
take life vest
up
EQUIP LIFE VEST
right
take bell
left
approach drowning man from bottom and use branch on him
EQUIP LIFE VEST
go right for bell and back
down
right
up 2x
right
use key on house
use log on man
take bottom right exit
take bell
go back in house and talk to man
again right exit and use oars on boat
take left on split (2nd boat screen)
enter cave
take bell and talk to vampire
go back across the river and thru the house
left
down 2x
right
use baby on woman
left 2x
up
down thru left
enter church in bottom left
place all bells back
up to the right side
walk into slimes face and mash B
take relic and exit church
backtrack to the vamp island
use rope on hole
use relic on building

LV9
!!!TELEPORTERS ARE 1-4 RIGHT TO LEFT!!!
left
right thru down
keep going until you see a black tinted walking robot, kill it and take explosive shell
backtrack to teleporters and enter #1
right
take laser gun
left (not the one you came in)
left
up
take card
down
take bottom route
right until you get documents
backtrack to tele and take it
activate and take #3
follow route until youre at left edge and theres long wall of cabinets at the bottom
take the keycard above the cabinets and go left
take the blue hallway, kill cyborg and take explosive shell
backtrack to tele and take #4
take left at intersection to reach the cyborg and yeet the shell
go back to intersection, go south and yeet the card
back to tele and take #2
down
take the hall up
use explosive shell on each blue machine
pop the champagne

Namn	Författare
Basic route (transcripted from GameFAQs)	Mr_Mary 5 years ago
My rough route (based on GameFAQs walkthrough)	Mr_Mary 4 years ago
Updated route (by Dvark)	Mr_Mary 2 years ago