Using the timeline poster, the booklets, and the lyrics of the songs themselves, I have put together a timeline. Many tracks appear more than one time, representing different things. In one case, a single track appears more than one time because of events happening during it.
Below is the timeline with some notes. Here it is as an XSPF playlist.
Universal Migrator and 01011001 are intertwined, but the tracks missing from the poster can be filled in without any problems. These Universal Migrator tracks represent events as they happen in history.
Universal Migrator, Part 2: Flight of the Migrator
1.01. Chaos
1.02. Dawn of a Million Souls
1.03. Journey on the Waves of Time
1.04. To the Quasar
1.05. Into the Black Hole
1.06. Through the Wormhole
The Source
1.01. The Day That the World Breaks Down
1.02. Sea of Machines
1.03. Everybody Dies
1.04. Star of Sirrah
1.05. All That Was
1.06. Run! Apocalypse! Run!
1.07. Condemned to Live
2.01. Aquatic Race
2.02. The Dream Dissolves
2.03. Deathcry of a Race
2.04. Into the Ocean
2.05. Bay of Dreams
2.06. Planet Y Is Alive!
2.07. The Source Will Flow
2.08. Journey to Forever
2.09. The Human Compulsion
2.10. March of the Machines
01011001
1.01. Age of Shadows (including We Are Forever)
1.02. Comatose
1.03. Liquid Eternity
1.05. Beneath the Waves: a) Beneath the Waves / b) Face the Facts / c) But a Memory... / d) World Without Walls / e) Reality Bleeds
1.06. Newborn Race: a) The Incentive / b) The Vision / c) The Procedure / d) Another Life / e) Newborn Race / f) The Conclusion
Universal Migrator, Part 2: Flight of the Migrator
1.07. Out of the White Hole
01011001
1.07. Ride the Comet
Universal Migrator, Part 2: Flight of the Migrator
1.08. To the Solar System
01011001
Ride the Comet is listed here on the poster, but as it seems to represent the extremophiles being sent off I have removed it. It is still included once earlier.
2.01. The Fifth Extinction: a) Glimmer of Hope / b) World of Tomorrow Dreams / c) Collision Course / d) From the Ashes / e) Glimmer of Hope (reprise)
Universal Migrator, Part 1: The Dream Sequencer
1.10. The First Man on Earth
01011001
2.02. Waking Dreams
Universal Migrator, Part 1: The Dream Sequencer
This track doesn't appear on the poster, but is dated in the booklet.
1.09. And the Druids Turn to Stone
The Final Experiment
These tracks represent the events as experienced by Ayreon, the monk.
1.01. Prologue: a) The Time Telepathy Experiment - b) Overture - c) Ayreon's Quest
1.02. Act I "The Dawning": The Awareness: a) Premonition - b) Dreamtime (Words Become a Song) - c) The Awakening
1.03. Act I "The Dawning": Eyes of Time: a) Eyes of Time - b) Brainwaves
1.04. Act I "The Dawning": The Banishment: a) A New Dawn - b) The Gathering - c) The Accusation - d) The Banishment - e) Oblivion
1.05. Act II "King Arthur's Court": Ye Courtyard Minstrel Boy
1.06. Act II "King Arthur's Court": Sail Away to Avalon
1.07. Act II "King Arthur's Court": Nature's Dance
1.08. Act III "Visual Echoes": Computer-Reign (Game Over)
1.09. Act III "Visual Echoes": Waracle
1.10. Act III "Visual Echoes": Listen to the Waves
1.11. Act III "Visual Echoes": Magic Ride
1.12. Act IV "Merlin's Will and Ayreons Fate": Merlin's Will
1.13. Act IV "Merlin's Will and Ayreons Fate": The Charm of the Seer
1.14. Act IV "Merlin's Will and Ayreons Fate": Swan Song
1.15. Act IV "Merlin's Will and Ayreons Fate": Ayreon's Fate: a) Ayreon's Fate - b) Merlin's Prophecy - c) Epilogue
Universal Migrator, Part 1: The Dream Sequencer
Only Carried by the Wind appears on the poster, but the other tracks are dated in the booklet.
1.08. Carried by the Wind
1.07. Temple of the Cat
1.06. Dragon on the Sea
1.05. The Shooting Company of Captain Frans B. Cocq
01011001
2.04. Unnatural Selection
Universal Migrator, Part 1: The Dream Sequencer
1.04. One Small Step
The Final Experiment
This track represents the historical event predicted by Ayreon.
1.08. Act III "Visual Echoes": Computer-Reign (Game Over)
01011001
1.04. Connect the Dots
1.08. Web of Lies
The Final Experiment
These tracks represent the CD released by Mr. Lucassen, The Final Experiment.
1.01. Prologue: a) The Time Telepathy Experiment - b) Overture - c) Ayreon's Quest
1.02. Act I "The Dawning": The Awareness: a) Premonition - b) Dreamtime (Words Become a Song) - c) The Awakening
1.03. Act I "The Dawning": Eyes of Time: a) Eyes of Time - b) Brainwaves
1.04. Act I "The Dawning": The Banishment: a) A New Dawn - b) The Gathering - c) The Accusation - d) The Banishment - e) Oblivion
1.05. Act II "King Arthur's Court": Ye Courtyard Minstrel Boy
1.06. Act II "King Arthur's Court": Sail Away to Avalon
1.07. Act II "King Arthur's Court": Nature's Dance
1.08. Act III "Visual Echoes": Computer-Reign (Game Over)
1.09. Act III "Visual Echoes": Waracle
1.10. Act III "Visual Echoes": Listen to the Waves
1.11. Act III "Visual Echoes": Magic Ride
1.12. Act IV "Merlin's Will and Ayreons Fate": Merlin's Will
1.13. Act IV "Merlin's Will and Ayreons Fate": The Charm of the Seer
1.14. Act IV "Merlin's Will and Ayreons Fate": Swan Song
1.15. Act IV "Merlin's Will and Ayreons Fate": Ayreon's Fate: a) Ayreon's Fate - b) Merlin's Prophecy - c) Epilogue
Actual Fantasy
1.04. Computer Eyes
Into the Electric Castle
1.01. Welcome to the New Dimension
1.02. Isis and Osiris: A) Let the Journey Begin - B) The Hall of Isis and Osiris - C) Strange Constellations - D) Reprise
1.03. Amazing Flight: A) Amazing Flight in Space - B) Stardance - C) Flying Colours
1.04. Time Beyond Time
1.05. The Decision Tree (We're Alive)
1.06. Tunnel of Light
1.07. Across the Rainbow Bridge
2.01. The Garden of Emotions: A) In the Garden of Emotions - B) Voices in the Sky - C) The Aggression Factor
2.02. Valley of the Queens
2.03. The Castle Hall
2.04. Tower of Hope
2.05. Cosmic Fusion: A) I Soar on the Breeze - B) Death's Grunt - C) The Passing of an Eagle
2.06. The Mirror Maze: A) Inside the Mirror Maze - B) Through the Mirror
2.07. Evil Devolution
2.08. The Two Gates
2.09. "Forever" of the Stars
2.10. Another Time, Another Space
01011001
2.03. The Truth Is in Here
Lost in the New Real
This album is not technically an Ayreon release. However, Mr. L from the preceding track appears and also other concepts from the Ayreon project. According to the booklet, Mr. L wakes up "several centuries" after the 21st century, probably on Earth. This doesn't fit well with the timeline, but if the "several" part is ignored, it could fit here. Otherwise, the album could be ignored.
1.01. The New Real
1.02. Pink Beatles in a Purple Zeppelin
1.03. Parental Procreation Permit
1.04. When I'm a Hundred Sixty-Four
1.05. E-Police
1.06. Don't Switch Me Off
1.07. Dr Slumber's Eternity Home
1.08. Yellowstone Memorial Day
1.09. Where Pigs Fly
1.10. Lost in the New Real
2.01. Our Imperfect Race
2.02. Welcome to the Machine
2.03. So Is There No God
2.04. Veteran of the Psychic Wars
2.05. The Social Recluse
2.06. Battle of Evermore
2.07. The Space Hotel
2.08. Some Other Time
2.09. You Have Entered the Reality Zone
2.10. I'm the Slime
Actual Fantasy
1.07. Back on Planet Earth
Universal Migrator, Part 1: The Dream Sequencer
1.02. My House on Mars
01011001
2.05. River of Time
2.06. E=mc²
The Final Experiment
1.01. Prologue: a) The Time Telepathy Experiment - b) Overture - c) Ayreon's Quest
1.09. Act III "Visual Echoes": Waracle
01011001
This track cover the entire ending, and as such multiple tracks take place during it. Specifically, 2084 takes place after Radioactive Grave, The Human Equation takes place after To the Planet of Red and Universal Migrator takes place during Spirit on the Wind.
2.07. The Sixth Extinction: a) Echoes on the Wind / b) Radioactive Grave / c) 2085 / d) To the Planet of Red / e) Spirit on the Wind / f) Complete the Circle
Universal Migrator, Part 1: The Dream Sequencer
1.03. 2084
The Human Equation
This album represents Forever playing the Human Equation program in the Dream Sequencer.
1.01. Day One: Vigil
1.02. Day Two: Isolation
1.03. Day Three: Pain
1.04. Day Four: Mystery
1.05. Day Five: Voices
1.06. Day Six: Childhood
1.07. Day Seven: Hope
1.08. Day Eight: School
1.09. Day Nine: Playground
1.10. Day Ten: Memories
1.11. Day Eleven: Love
2.01. [untitled]
2.02. [untitled]
2.03. [untitled]
2.04. [untitled]
2.05. [untitled]
2.06. [untitled]
2.07. [untitled]
2.08. [untitled]
2.09. [untitled]
2.10. [untitled]
2.11. [untitled]
2.12. Day Twelve: Trauma
2.13. Day Thirteen: Sign
2.14. Day Fourteen: Pride
2.15. Day Fifteen: Betrayal
2.16. Day Sixteen: Loser
2.17. Day Seventeen: Accident?
2.18. Day Eighteen: Realization
2.19. Day Nineteen: Disclosure
2.20. Day Twenty: Confrontation
Universal Migrator, Part 1: The Dream Sequencer
This album and the next represents the Mars Colonist playing the Universal Migrator program in the Dream Sequencer.
1.01. The Dream Sequencer
1.02. My House on Mars
1.03. 2084
1.04. One Small Step
1.05. The Shooting Company of Captain Frans B. Cocq
1.06. Dragon on the Sea
1.07. Temple of the Cat
1.08. Carried by the Wind
1.09. And the Druids Turn to Stone
1.10. The First Man on Earth
1.11. The Dream Sequencer Reprise
Universal Migrator, Part 2: Flight of the Migrator
1.01. Chaos
1.02. Dawn of a Million Souls
1.03. Journey on the Waves of Time
1.04. To the Quasar
1.05. Into the Black Hole
1.06. Through the Wormhole
1.07. Out of the White Hole
1.08. To the Solar System
1.09. The New Migrator
01011001
Complete the Circle takes place after Universal Migrator, which is why this track is listed twice.
2.07. The Sixth Extinction: a) Echoes on the Wind / b) Radioactive Grave / c) 2085 / d) To the Planet of Red / e) Spirit on the Wind / f) Complete the Circle
Timeline
3.11. Epilogue: The Memory Remains
