- Duke Nukem: Zero HourReleased: August 1999Developer: Eurocom
- Gauntlet LegendsReleased: August 31, 1999Developer: Atari Games
- Hot Wheels Turbo RacingReleased: August 31, 1999Developer: Stormfront Studios
- Madden NFL 2000Released: August 31, 1999Developer: EA Orlando
- NFL Quarterback Club 2000Released: August 31, 1999Developer: Acclaim Studios Austin
- Tony Hawk's Pro SkaterReleased: August 31, 1999Developer: Neversoft
- Hydro ThunderReleased: September 9, 1999Developer: Midway Games
- Army Men: Sarge's HeroesReleased: September 28, 1999Developer: The 3DO Company
- Jeremy McGrath Supercross 2000Released: September 29, 1999Platforms: Nintendo 64
- F-1 World Grand Prix IIReleased: September 30, 1999Developer: Paradigm Entertainment, Video System
- San Francisco Rush 2049Released: October 1999Developer: Atari Games, Handheld Games
- South Park: Chef's Luv ShackReleased: October 12, 1999Developer: Acclaim Studios Austin
- Rayman 2: The Great EscapeReleased: October 29, 1999Series: Rayman
- Super Robot Wars 64Released: October 29, 1999Developer: Banpresto
- Earthworm Jim 3DReleased: October 31, 1999Developer: VIS Entertainment
- Lego RacersReleased: October 31, 1999Developer: High Voltage Software
- NBA Courtside 2: Featuring Kobe BryantReleased: October 31, 1999Series: NBA Courtside
- NBA Jam 2000Released: October 31, 1999Platforms: Nintendo 64
- Top Gear Rally 2Released: October 31, 1999Developer: Saffire
- Turok: Rage WarsReleased: October 31, 1999Developer: Acclaim Studios Austin
- Vigilante 8: 2nd OffenseReleased: October 31, 1999Developer: Luxoflux
- NBA Live 2000Released: November 2, 1999Developer: EA Sports
- 64 Hanafuda: Tenshi no YakusokuReleased: November 5, 1999Developer: Altron
- Donkey Kong 64Released: November 22, 1999Developer: Rare Ltd.
- Namco Museum 64Released: November 29, 1999Series: Namco Museum
- Castlevania: Legacy of DarknessReleased: November 30, 1999Publisher: Konami
- South Park RallyReleased: November 30, 1999Developer: Tantalus Media
- Mario Artist: Paint StudioReleased: December 1, 1999Series: Mario Artist
- Bomberman 64: The Second AttackReleased: December 3, 1999Developer: Hudson Soft
- Custom RoboReleased: December 8, 1999Developer: Noise
- Asteroids Hyper 64Released: December 15, 1999Developer: Syrox Developments
- Choro Q 64 2: Hachamecha Grand Prix RaceReleased: December 24, 1999Publisher: Takara
- Michelin Rally Masters: Race of ChampionsReleased: 2000Developer: DICE
- NBA in the Zone 2000Released: 2000Developer: Konami Computer Entertainment Osaka
- Brunswick Circuit Pro Bowling 2Released: January 31, 2000Developer: Adrenalin Entertainment, Sennari Games
- SimCity 64Released: February 28, 2000Developer: HAL Laboratory
- Pokémon StadiumReleased: February 29, 2000Developer: HAL Laboratory, Nintendo Entertainment Analysis & Development
- Top Gear Hyper BikeReleased: March 17, 2000Developer: Snowblind Studios
- Kirby 64: The Crystal ShardsReleased: March 24, 2000Developer: HAL Laboratory
- The Legend of Zelda: Majora's MaskReleased: April 27, 2000Developer: Nintendo Entertainment Analysis & Development
- Excitebike 64Released: April 30, 2000Publisher: Nintendo
- Perfect DarkReleased: May 22, 2000Developer: Rare Ltd.
- Mario TennisReleased: July 21, 2000Developer: Camelot Software Planning
- Turok 3: Shadow of OblivionReleased: July 27, 2000Developer: Bit Managers
- Madden NFL 2001Released: August 22, 2000Developer: EA Orlando
- Tony Hawk's Pro Skater 2Released: September 20, 2000Developer: Neversoft
- Pokémon Puzzle LeagueReleased: September 25, 2000Developer: Nintendo Software Technology
- Mario Party 2Released: October 13, 2000Developer: Hudson Soft
- Cruis'n ExoticaReleased: October 16, 2000Developer: Midway Games
- The World Is Not EnoughReleased: November 2000Developer: Eurocom
- Custom Robo V2Released: November 10, 2000Developer: Noise
- Banjo-TooieReleased: November 20, 2000Developer: Rare Ltd.
- Sin and PunishmentReleased: November 21, 2000Developer: Treasure, Nintendo Research & Development 1
- Dance Dance Revolution Disney Dancing MuseumReleased: November 30, 2000Developer: Bemani
- Mario Party 3Released: December 7, 2000Developer: Hudson Soft
- Pokémon Stadium 2Released: December 14, 2000Developer: Nintendo Entertainment Analysis & Development
- Shiren the Wanderer 2Released: December 27, 2000Developer: Chunsoft
- The Powerpuff Girls: Chemical X-TractionReleased: 2001Developer: VIS Entertainment
- Conker's Bad Fur DayReleased: March 5, 2001Developer: Rare Ltd.
- Aidyn Chronicles: The First MageReleased: March 14, 2001Publisher: THQ
- Dr. Mario 64Released: April 8, 2001Developer: Nintendo
- Doubutsu no MoriReleased: April 14, 2001Series: Animal Crossing
- Derby Stallion 64Released: August 10, 2001Developer: ASCII Corporation
- Madden NFL 2002Released: September 12, 2001Developer: EA Orlando
- Tony Hawk's Pro Skater 3Released: October 28, 2001Developer: Gearbox Software, Shaba Games, Edge of Reality, HotGen, Neversoft
- Bomberman 64Released: December 20, 2001Developer: Racjin
- The Legend of Zelda: Ocarina of TimeReleased: February 18, 2003Developer: Nintendo Entertainment Analysis & Development, Nintendo
- Chrono ResurrectionReleased: December 25, 2004Series: Chrono
- Star Fox 64Released: April 17, 2007Developer: Nintendo Entertainment Analysis & Development
- 1080° SnowboardingReleased: January 15, 2008Developer: Nintendo Entertainment Analysis & Development
- Paper MarioReleased: May 21, 2015Developer: Intelligent Systems
- Xeno CrisisReleased: October 28, 2019Developer: Bitmap Bureau
- All-Star Baseball 2001Series: All-Star BaseballPlatforms: Nintendo 64
- All-Star Baseball 99Series: All-Star BaseballPlatforms: Nintendo 64
- Dezaemon 3DDeveloper: AthenaPlatforms: Nintendo 64
- Mario Artist: Polygon StudioSeries: Mario ArtistPlatforms: Nintendo 64
- Mario Artist: Talent StudioSeries: Mario ArtistPlatforms: Nintendo 64
- NBA In The Zone '98Developer: Konami Computer Entertainment OsakaSeries: NBA in the Zone
- NFL QB Club 2001Developer: High Voltage SoftwareSeries: NFL Quarterback Club
- NFL Quarterback Club 99Developer: Acclaim Studios AustinSeries: NFL Quarterback Club
- Pocket Monsters StadiumDeveloper: HAL LaboratorySeries: Pokémon Stadium
- Puzzle Bobble 2Developer: TaitoPlatforms: Neo Geo, Classic Mac OS, Microsoft Windows, Nintendo 64
- Puzzle Bobble 3Developer: TaitoPlatforms: Microsoft Windows, Nintendo 64
- Robot Ponkottsu 64: Nanatsu no Umi no CaramelDeveloper: Red EntertainmentSeries: Robopon Sun, Star, and Moon Versions