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Mission.1 Ghosts of the JGSDF

Mission.2 Perilous Flight

Mission.3 The Prime Minister Arrives!

Mission.4 Full Speed to JAXA!

Mission.5 Planet

Mission.6 Intruders

Mission.7 The Ghosts' Nest

Mission.8 The Cleanup Crew

Mission.9 One Tokyo Night

Mission.10 The Water Plant

Mission.11 Operation: Rescue Aoi

Mission.12 Save Ibara!

Mission.13 The 1st Division's Secret

Mission.14 Emergency

Mission.15 Kanpachi Blockade

Mission.16 The Ozu Sisters

Mission.17 Bad Genes

Mission.18 Clash!!

Mission.19 Take Down the Ozu Sisters

Mission.20 Dolls

Mission.21 The Wind of Death

Mission.22 Nature's Wrath

Mission.23 Musashino Railway!

Mission.24 Taeko's Decision

Mission.25 The Last Supper

Mission.26 The Keepsake Photo

Mission.27 Connected

Mission.28 The Battle Begins!

Mission.29 The Battle at Inogashira Park

Mission.30 Atoms for Peace

Mission.31 Swan Boat, Full Speed

Mission.32 Human History

Mission.33 Haruto's Gun

Mission.34 The 1st Division's Counterattack

Mission.35 The Iron Spider

Mission.36 All-Out War

Mission.37 Victims of Science

Mission.38 Open Sesame

Mission.39 Decisive Move

Mission.40 Tower of the Sun

Mission.41 Run, Haruto

Mission.42 The Broken Cog

Mission.43 The Final Countdown

Mission.44 The Cross to Bear

Mission.45 The Last Aether

Mission.46 Ibara's Path

Mission.47 A Noble Death

Mission.48 No Future For Us

Mission.49 All Aboard!

Mission.50 Angel in the Rubble

Mission.51 Dry Your Tears

Mission.52 A White World

Mission.53 To the Inner City

Mission.54 Marionette

Mission.55 Steel Strings

Mission.56 Battle at Koenji

Mission.57 Resolution

Mission.58 The City Lights

Mission.59 Last Stop, Shinjuku

Mission.60 Smiling in the Morning Sun

Phase.1 The Girl in the Forest

Phase 2 The Most Dangerous Radiation

Phase.3 The Walking Reactor

Phase.4 Bug

Phase.5 The Collapse of Shinjuku

Phase.6 Underground Promenade

Phase.7 Pursuer

Phase.8 Underground Monster

Phase.9 Grotesque Truth

Phase.10 Chimera

Phase.11 Flight Down Meiji Street!

Phase.12 The Master of City Hall

Phase.13 Dr. Coppelius

Phase.14 I Wandering Sand

Phase.15 Reload

Phase.16 Takeshita Street

Phase.17 Parallel World

Phase.18 The Underground Paradise

Phase.19 Festival Night

Phase.20 To the World Above

Phase 21 The Riddle of Dr. Coppelius

Phase.22 The Next Trial

Phase.23 After That Rabbit!

Phase 24 Monument of Death

Phase.25 Fossil Display

Phase.26 Fossiloid

Phase.27 The True Enemy

Phase.28 The Men's Decision

Phase.29 3D Labyrinth

Phase.30 Ideology

Phase.31 On the Trail! Battle on the Web

Phase.32 Problem on the Nagoya Front

Phase.33 The Evil Wizard

Phase.34 Red Wings, To the East

Phase.35 Inferno

Phase.36 The Empty Girl

Phase.37 The Magic Drug

Phase.38 The Flowers of Evil

Phase 39 Blitz! Battle to the Limit

Phase.40 Clone Original

Phase.41 Heaven and Hell

Phase.42 The Magic Finger

Phase.43 Original vs. Copy

Phase.44 Reunion in the Old Capital

Phase.45 Nuclear Gateway

Phase.46 Humanity's Dream

Phase.47 One Hell of a Ride in the City of Death!

Phase.48 The Original's Obstacle

Phase.49 The Path of Destruction

Phase.50 Melancholia's Magic Square

Phase.51 Guardian Angel

Phase.52 Izanami's Rebellion

Phase.53 Neuro Balancer

Phase.54 Destroyer of Worlds

Phase.55 Ikebukuro's Flying Monster

Phase.56 Help Me, Ibara!

Phase.57 Fire of the Heart

Phase 58 Constitutional Reform!

Phase.59 First Feelings

Phase.60 High Speed! Expressway Battle

Phase.61 Arms Dealer

Phase.62 Technology of the Future

Phase.63 Doll vs. Robot

Phase.64 The Great Toranomon Scuffle

Phase.65 The Battle on Tokyo Tower

Phase.66 I'm Not a Doll!

Phase.67 Mana's Arrival!

Phase.68 The Hand that Bid Farewell

Phase.69 Traitors

Phase.70 Fireworks

Phase.71 The Underwater Maze

Phase.72 Infiltrating Shibuya Shopping Mall!

Phase.73 Section D-2

Phase.74 Intruder in the Shelter

Phase.75 Time Limit

Phase.76 Decryption

Phase.77 Human Experimentation

Phase.78 The Three Professors' Demand

Phase.79 Dark Matter

Phase.80 The Airship

Phase.81 Battle on the Airship

Phase.82 Desperate Dive

Phase.83 Black Wings

Phase.84 Search for an Ark

Phase.85 World War

Phase.86 Strategy Meeting

Phase.87 Edon Type-0

Phase.88 The Great Tokyo Battle!

Phase.89 The Exploration Unit

Phase.90 Dance of Destruction

Phase.91 Yasukuni Street

Phase.92 The Mystery of the Sudden Deaths

Phase.93 Fate and Choice

Phase.94 Passing Days

Phase.95 Prometheus' Fire

Phase.96 Emergency Evacuation

Phase.97 Their Promise

Phase.98 New Sprout

Phase.99 Farewell, Shelter 109

ACT.1 The Day of the Final Battle

ACT.2 Take the Genryu!

ACT.3 In the Silent City

ACT.4 SOS! Daikanyama

ACT.5 The Children of the Future

ACT.6 Never-ending Battle

Act.7 The Goddess of Jiyugaoka

Act.8 Tne Retrieval Unit

Act.9 Caged Bird

Act.10 Cease Fire

Act.11 Reunion on the Battlefield

Act.12 The Faded Photo

Act.13 Haruto Returns

Act.14 To a World of Darkness

Act.15 Take Down the Black Wings!

Act.16 Beneath the Masks

Act.17 Roll Out!

Act.18 The Record from 2011

Act.19【Tokyo Station Showdown 】

Act.20【Site-0】

Act.21【DecisiveDecisive Battle in Akihabara】

Act.22【Golden Ratio 】

Act.23【The Switch of Destiny】

Act.24【Convergence】

Act.25【Spiritual Vessel】

Act.26【Mana's Secret】

Act.27【Took You Long Enough, VP! 】

Act.28【Battle against the Wall 】

Act.29【A Distant Promise】

Act.30【Onslaught of Flame 】

Act.31【Words for the Future】

Act.32【Whispers of Death】

Act.33【Apoptosis】

Act.34【Light the Fire】

Act.35【Dawn】

Act.36【Evacuation Complete】

Plant 1【Across the Bridge】

Plant 2【Release From Zero】

Plant 3【Initializer】

Plant 4【Castle of Sand】

Plant 5【Cellular Memory】

Plant 6【At the End of this World】

Plant 7【Tender Memories】

Plant 8【Great Collapse】

Plant 9【Cries of Hope 】

Last Plant【Graduation Photo】