LogFAQs > #909578570

In the bracket (108 Slots Taken):

2B (Nier Automata)
9S (Nier Automata)
Adam Jensen (Deus Ex: Human Revolution)
Adelbert Steiner (Final Fantasy IX)
Alan Wake (Alan Wake)
Alex Mercer (Prototype)
Amy Rose (Sonic Adventure)
Andrew Ryan (Bioshock)
April Ryan (The Longest Journey)
Baby Peach (Mario Kart)
Beatrice (Umineko no Naku Koro ni)
Bomberman (Bomberman)
Bowser (Super Mario Bros)
Captain Falcon (F-Zero)
Chloe Price (Life Is Strange)
Cindy Aurum (Final Fantasy XV)
Cirno (Touhou)
Claire Redfield (Resident Evil 2)
Claude (Grand Theft Auto III)
Clementine (The Walking Dead)
Commander Shepard (Mass Effect)
Dante (Devil May Cry)
Dick Gumshoe (Phoenix Wright: Ace Attorney)
Dimitri (Sly 2: Band of Thieves)
Dracula (Castlevania)
Estelle Bright (The Legend of Heroes: Trails in the Sky)
Francis York Morgan (Deadly Premonition)
Futaba Sakura (Persona 5)
GLaDOS (Portal)
Geralt (The Witcher)
Goro Majima (Yakuza)
Hat Kid (A Hat in Time)
Hector (Fire Emblem)
Ike (Fire Emblem: Path of Radiance)
Isabelle (Animal Crossing)
James Sunderland (Silent Hill 2)
Jill Valentine (Resident Evil)
Joker (Persona 5)
Kaine (Nier)
Kazuma Kiryu (Yakuza)
King Dedede (Kirbys Dream Land)
King K. Rool (Donkey Kong Country)
King of All Cosmos (Katamari)
Kirby (Kirby)
Knuckles (Sonic 3)
Kyle Hyde (Hotel Dusk)
Kyoko Kirigiri (DanganRonpa)
Laguna Loire (Final Fantasy VIII)
Leia Rolando (Tales of Xillia)
Lightning (Final Fantasy XIII)
Luca Blight (Suikoden II)
Lucina (Fire Emblem: Awakening)
Lucius (Fire Emblem 7)
Luigi (Super Mario Bros.)
Manny Calavera (Grim Fandango)
Marisa Kirisame (Touhou)
Martin Walker (Spec Ops: The Line)
Master Chief (Halo)
Mercy (Overwatch)
Metal Man (Mega Man 2)
Metal Sonic (Sonic CD)
Mettaton (Undertale)
Michel Bollinger (The House in Fata Morgana)
Midknight (Eternal Champions)
Midna (The Legend of Zelda: Twilight Princess)
Mileena (Mortal Kombat II)
Miles Edgeworth (Ace Attorney)
Missile (Ghost Trick)
Misty (Pokemon Red/Blue)
Miyako Shiina (Maji de Watashi ni Koi Shinasai)
Monokuma (Danganronpa)
Monster Ock (Spider-Man (2000))
Mordin Solus (Mass Effect 2)
Nathan Drake (Uncharted: Drake's Fortune)
Nero (Devil May Cry 4)
Noctis (Final Fantasy XV)
Octodad (Octodad)
Papyrus (Undertale)
Raiden (Metal Gear Solid 2)
Revolver Ocelot (Metal Gear Solid series)
Rikku (Final Fantasy X)
Rin Tohsaka (Fate/Stay Night)
Rise Kujikawa (Persona 4)
Rosalina (Super Mario Galaxy)
Sam Fisher (Splinter Cell)
Sephiroth (Final Fantasy VII)
Shulk (Xenoblade Chronicles)
Snorlax (Pokemon Red/Blue)
Solid Snake (Metal Gear Solid)
Tear Grants (Tales of the Abyss)
The Nameless One (Planescape:Torment)
Tidus (Final Fantasy X)
Tifa Lockheart (Final Fantasy VII)
Tiny (Crash Bandicoot 2)
Toad (Mario series)
Truckpump (Barkley Gaiden)
Ulala (Space Channel 5)
Vanille (Final Fantasy XIII)
Velvet Crowe (Tales of Berseria)
Viktor Reznov (Call of Duty: Black Ops)
Vyse (Skies of Arcadia: Legends)
Will (Illusion of Gaia)
Wolf O'Donnell (Star Fox 64)
Yuffie Kisaragi (Final Fantasy VII)
Yusuke Kitagawa (Persona 5)
Zack Fair (Final Fantasy VII)
Zelda (The Legend of Zelda)
Zexion (Kingdom Hearts: Chain of Memories)

Feel free to point out mistakes.
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Black Turtle did a pretty good job.