Mission 1: The Pirate Ship

On and Below the Decks
Boss Battle: Shahdee

Mission 2: On Shore (Present)

The Beach
Up the Cliffs to the Fortress Entrance
Battling Shahdee's Minions
Boss Battle: Crow Wraith
To The Time Portal

Mission 3: Inside The Fortress (Past)

Avoiding Traps
To The First Life Upgrade (Life Upgrade 1)
Deep Into The Fortress
Poles and Ladders
Climbing Through The Large Room
Up To The Swinging Lever
Boss Battle: Shahdee
Climbing and Swinging (Life Upgrade 2)
To The Next Time Portal

Mission 4: Inside The Fortress (Present)

Learning Eye of the Storm
Running Away To The Past

Mission 5: Inside The Fortress (Past)

Back Through The Fortress
Reaching The Hourglass Chamber

Mission 6: Opening The Garden Gate (Past)

Activate the Main Lever (Life Upgrade 3)
Heading to the Garden
Moving Through the Garden
Another Life Upgrade (Life Upgrade 4)
Climbing to the Water Switch
Activating the Water Switch
Channeling the Sewer Water
Moving Through The Garden Gate

Mission 7: Activating The Water Tower (Present)

Moving Through The Garden
Back Up The Cliffs
Pole Dancing
Running Away To The Time Portal

Mission 8: Activating The Water Tower (Past)

Heading To The Courtyard
Flipping The Water Switch
Activating The Water Tower (Life Upgrade 5)
Backtracking To The Garden
Dropping The Ladder
Back To The Central Hall

Mission 9: Activating the Mech Tower (Past)

Exiting Central Hall
First Iron Giant Battle
Through The Large Gear Room
Through The Water Wheel Room
From The Iron Giant To The Time Portal

Mission 10: Activating the Mech Tower (Present)

Back Through The Water Wheel Room
Up Through The Cyliner Gear Room
Running From The Dahaka

Mission 11: Activating the Mech Tower (Past)

Through To The Large Hall
To The Next Life Upgrade (Life Upgrade 6)
Activating The First Gear
Activating The Second and Third Gears
Boss Battle: Iron Giant
Back To Central Hall
Back To The Hourglass Room
Boss Battle: The Empress

Mission 12: The Tomb & Prison (Present)

Running From The Dahaka
Escaping The Tomb
To The Time Portal

Mission 13: The Tomb & Prison (Past)

Acquiring The Scorpion Sword
Blades and Enemies
Boss Battle: Red Giant (Life Upgrade 7)
The Library 1
The Library 2 (Life Upgrade 8)
Back To The Gear Room
Back To The Central Hall
Sidequest (Life Upgrade 9)
Back To The Central Hall... Again
To The Time Portal (Water Sword Optional)

Mission 14: Finding The Mask (Present)

To The Sand Wraith Mask
To The Time Portal

Mission 15: Path To The Throne Room (Past)

To The Large Platform
Boss Battle: Griffon
Back To The Garden Waterworks
Back To The Garden
To The Time Portal

Mission 16: Path To The Throne Room (Present)

To The Time Portal

Mission 17: Path To The Throne Room (Past)

Down To The Caves
Outdoor Adventures
To The Metalworks
Exiting The Metalworks
Back Through The Library
Dahaka And Caves
Across The Cave Ceiling
Through The Large Gear Room
Back To The Hourglass Room

Mission 18: The Final Battle

Through The Time Portal (avoid Water Sword)
Final Boss Battle

Mission 19: Alternate Final Battle

Through The Time Portal (Water Sword)
Final Boss Battle

Endings

Standard Ending (without Water Sword)
Alternate Ending (with Water Sword)