• HShop – a homebrew eShop alternative
• ThirdTube – YouTube client for the 3DS.
• 3DSident – ​​Displays detailed system information of the 3DS.
• BootNTR Selector – Homebrew tool for activating custom plugins via NTR CFW.
• Wumiibo Helper – Tool for emulating Amiibo data on the 3DS.
• FastPlayCoin – a tool for quickly generating play coins.
• GYTB – Homebrew tool for modifying the Mii Plaza / StreetPass.
• Nimbus Pretendo – Connects to the Pretendo servers to play online.
• PictoChat 3DS – Homebrew remake of the original PictoChat from the Nintendo DS.
• Reidh Helper – App for changing the button mapping of the 3DS.
• TWL Save Tool – Homebrew tool for backing up and restoring DS/DSi game saves.
• RGB – A homebrew app that makes the charging LED light up in different colors.

• Pokémon Bank – Cloud storage app for transferring Pokémon between 3DS games.
• Poké Transporter – a tool for transferring Pokémon from older generations to the Pokémon Bank.
• PKSM – Homebrew app for managing, editing, and transferring Pokémon save data.

Generation 1

• Pokémon Red Edition (Game Boy, Virtual Console)
• Pokémon Blue Edition (Game Boy, Virtual Console)
• Pokémon Yellow Edition (Game Boy, Virtual Console)

Generation 2

• Pokémon Golden Edition (Game Boy Color, Virtual Console)
• Pokémon Silver Edition (Game Boy Color, Virtual Console)
• Pokémon Crystal Edition (Game Boy Color, Virtual Console)

Generation 3

• Pokémon Ruby Edition (Game Boy Advance)
• Pokémon Sapphire Edition (Game Boy Advance)
• Pokémon Emerald Edition (Game Boy Advance)
• Pokémon Fire Red Edition (Game Boy Advance)
• Pokémon LeafGreen Edition (Game Boy Advance)

Generation 4

• Pokémon Diamond Edition (Nintendo DS)
• Pokémon Perl Edition (Nintendo DS)
• Pokémon Platinum Edition (Nintendo DS)
• Pokémon Gold Version HeartGold (Nintendo DS)
• Pokémon Silver Version SoulSilver (Nintendo DS)

Generation 5

• Pokémon Black Version (Nintendo DS)
• Pokémon White Version (Nintendo DS)
• Pokémon Black Version 2 (Nintendo DS)
• Pokémon White Version 2 (Nintendo DS)

Generation 6

• Pokémon X (Nintendo 3DS)
• Pokémon Y (Nintendo 3DS)
• Pokémon Omega Ruby (Nintendo 3DS)
• Pokémon Alpha Sapphire (Nintendo 3DS)

Generation 7

• Pokémon Sun (Nintendo 3DS)
• Pokémon Moon (Nintendo 3DS)
• Pokémon Ultra Sun (Nintendo 3DS)
• Pokémon Ultra Moon (Nintendo 3DS)

Randomizer versions (modified ROMs)

• Pokémon Emerald Random Version (Game Boy Advance, Mod)
• Pokémon FireRed Random Version (Game Boy Advance, Mod)
• Pokémon Gold Randomizer (Game Boy Color, Mod)
• Pokémon LeafGreen Random Version (Game Boy Advance, Mod)
• Pokémon Ruby Random Version (Game Boy Advance, Mod)
• Pokémon Silver Randomizer (Game Boy Color, Mod)

Pokémon Mystery Dungeon Games

• Pokémon Mystery Dungeon: Red Rescue Team (Game Boy Advance, 2005)
• Pokémon Mystery Dungeon: Explorers of Sky (Nintendo DS, 2009)
• Pokémon Mystery Dungeon: Gates to Infinity (Nintendo 3DS, 2012)
• Pokémon Super Mystery Dungeon (Nintendo 3DS, 2015)

Super Mario

• Super Mario Bros. (NES, 1985, Virtual Console)
• Super Mario Bros. 2 (NES, 1988, Virtual Console)
• Super Mario Bros. 3 (NES, 1988, Virtual Console)
• Super Mario World (SNES, 1990, Virtual Console)
• Super Mario Land 2: 6 Golden Coins (Game Boy, 1992, Virtual Console)
• Super Mario 64 (Nintendo 64, 1996) (modified version for Nintendo 3DS released later)
• Super Mario Advance (Game Boy Advance, 2001)
• Super Mario Advance 2: Super Mario World (Game Boy Advance, 2001)
• Super Mario Advance 3: Yoshi's Island (Game Boy Advance, 2002)
• Super Mario Advance 4: Super Mario Bros. 3 (Game Boy Advance, 2003)
• Super Mario 64 DS (Nintendo DS, 2004)
• New Super Mario Bros. (Nintendo DS, 2006)
• Super Mario Star Road (Nintendo 64 Homebrew, 2011)
• Super Mario 3D Land (Nintendo 3DS, 2011)
• New Super Mario Bros. 2 (Nintendo 3DS, 2012)
• Super Mario Maker for Nintendo 3DS (Nintendo 3DS, 2016)

Mario Kart

• Mario Kart Super Circuit (Game Boy Advance, 2001)
• Mario Kart DS (Nintendo DS, 2005)
• Mario Kart 7 (Nintendo 3DS, 2011)

Mario Party & Sports

• Mario Party Advance (Game Boy Advance, 2005)
• Mario Party DS (Nintendo DS, 2007)
• Mario & Sonic at the London 2012 Olympic Games (Nintendo 3DS, 2011)
• Mario Tennis Open (Nintendo 3DS, 2012)
• Mario Golf: Advance Tour (Game Boy Advance, 2012)
• Mario & Sonic at the Rio 2016 Olympic Games (Nintendo 3DS, 2016)
• Mario Party: The Top 100 (Nintendo 3DS, 2017)
• Mario Sports Superstars (Nintendo 3DS, 2017)

Other Mario games

• Dr. Mario (Game Boy, 1990, Virtual Console)
• Super Mario Ball (Game Boy Advance, 2004)
• Super Mario 64 (modified version for Nintendo 3DS, unknown)

Mario vs. Donkey Kong

• Mario vs. Donkey Kong (Game Boy Advance, 2004)
• Mario vs. Donkey Kong: Minis March Again! (Nintendo DSiWare, 2009)
• Mario vs. Donkey Kong: Tipping Stars (Nintendo 3DS, 2015)

• Donkey Kong Country
• Donkey Kong Country 2 Diddy's Kong Quest
• Donkey Kong Country 3 Dixie Kong's Double Trouble!

Luigi's Mansion

• Luigi's Mansion 2 (Nintendo 3DS)
• Luigi's Mansion (Nintendo 3DS)

Mario & Luigi

• Mario & Luigi: Dream Team Bros. (Nintendo 3DS)
• Mario & Luigi: Paper Jam Bros. (Nintendo 3DS)
• Mario & Luigi: Partners in Time (Nintendo DS)
• Mario & Luigi: Bowser's Inside Story + Bowser Jr.'s Journey (Nintendo 3DS)
• Mario & Luigi: Superstar Saga + Bowser's Minions (Nintendo 3DS)

• Sonic Advance (Game Boy Advance, 2001)
• Sonic Advance 2 (Game Boy Advance, 2002)
• Sonic Advance 3 (Game Boy Advance, 2004)
• Sonic Generations (Nintendo 3DS, 2011)
• Sonic Lost World (Nintendo 3DS & Wii U, 2013)
• Sonic Mania (PC, PS4, Xbox One, Nintendo Switch, 2017)

• The Legend of Zelda: Tri Force Heroes (Nintendo 3DS)
• The Legend of Zelda: Majora's Mask 3D (Nintendo 3DS)
• The Legend of Zelda: A Link Between Worlds (Nintendo 3DS)
• The Legend of Zelda: Ocarina of Time 3D (Nintendo 3DS)
• The Legend of Zelda: Spirit Tracks (Nintendo DS)
• The Legend of Zelda: Phantom Hourglass (Nintendo DS)
• The Legend of Zelda: The Minish Cap (Game Boy Advance)
• The Legend of Zelda: Oracle of Ages (Game Boy Color, Virtual Console)
• The Legend of Zelda: Oracle of Seasons (Game Boy Color, Virtual Console)
• The Legend of Zelda: Link's Awakening DX (Game Boy Color, Virtual Console)
• The Legend of Zelda: A Link to the Past & Four Swords (Game Boy Advance)
• Zelda II: The Adventure of Link (NES, Virtual Console)
• The Legend of Zelda (NES, Virtual Console)

• Kirby: Mass Attack (Nintendo DS)
• Kirby: Mouse Attack (Nintendo DS)
• Kirby: Power Paintbrush (Nintendo DS)
• Kirby: Battle Royale (Nintendo 3DS)
• Kirby Super Star Ultra (Nintendo DS)
• Kirby: Triple Deluxe (Nintendo 3DS)
• Kirby's Extra Epic Yarn (Nintendo 3DS)

• Monster Hunter 3 Ultimate (Nintendo 3DS)
• Monster Hunter 4 Ultimate (Nintendo 3DS)
• Monster Hunter Generations (Nintendo 3DS)
• Monster Hunter Stories (Nintendo 3DS)

• Fire Emblem: Shadow Dragon (Nintendo DS)
• Fire Emblem: Awakening (Nintendo 3DS)
• Fire Emblem Fates (Nintendo 3DS)
• Fire Emblem (Game Boy Advance, Virtual Console on 3DS)

• Professor Layton and the Curious Village (Nintendo DS)
• Professor Layton and the Azran Legacy (Nintendo 3DS)
• Professor Layton and the Spectre's Call (Nintendo DS)
• Professor Layton and the Miracle Mask (Nintendo 3DS)
• Professor Layton and the Pandora's Box (Nintendo DS)
• Professor Layton and the Lost Future (Nintendo DS)
• Professor Layton vs. Phoenix Wright: Ace Attorney (Nintendo 3DS)
• Layton's Mystery Journey: Katrielle and the Millionaires' Conspiracy (Nintendo 3DS)

• Apollo Justice: Ace Attorney (Nintendo 3DS)
• Phoenix Wright: Ace Attorney – Dual Destinies (Nintendo 3DS)
• Phoenix Wright: Ace Attorney Trilogy (Nintendo 3DS)
• Phoenix Wright: Ace Attorney – Spirit of Justice (Nintendo 3DS)

• Harvest Moon: Back to Nature (1999)
• Harvest Moon: Friends of Mineral Town (2003)
• Harvest Moon (CTR-N-QASP) – Probably Tale of Two Towns (2011)
• Harvest Moon: The Lost Valley (2014)

• Animal Crossing: New Leaf – Welcome Amiibo (Nintendo 3DS)
• Animal Crossing – Wild World (Nintendo DS)

• Nintendogs + Cats: Golden Retrievers & New Friends
• Nintendogs + Cats: French Bulldog & New Friends

• Mega Man V (Game Boy, Virtual Console)
• Mega Man IV (Game Boy, Virtual Console)
• Mega Man III (Game Boy, Virtual Console)
• Mega Man II (Game Boy, Virtual Console)
• Mega Man: Dr. Wily's Revenge (Game Boy, Virtual Console)
• Mega Man Legacy Collection (Nintendo 3DS)

• Dragon Quest: The Chapters of the Chosen (Nintendo DS)
• Dragon Quest: The Hand of the Heavenly Bride (Nintendo DS)
• Dragon Quest IX: Sentinels of the Starry Skies (Nintendo DS)
• Dragon Quest Monsters – Joker (Nintendo DS)
• Dragon Quest Monsters – Joker 2 (Nintendo DS)
• Dragon Quest VI: Realms of Reverie (Nintendo DS)
• Dragon Quest VII: Fragments of the Forgotten Past (Nintendo 3DS)

• LEGO The Lord of the Rings
• LEGO City Undercover
• LEGO Marvel Super Heroes: Universe in Peril
• LEGO Ninjago - Shadow of Ronin
• LEGO Jurassic World

• Digimon Battle Spirit (Game Boy Advance)
• Digimon World (Nintendo DS)

• fusion
• Zero Mission
• Samus Returns

• Rayman Advance
• Rayman 3D

• Tomodachi Life
• Miitopia
• Terraria
• Minecraft
• Inazuma Eleven GO Galaxy Big Bang
• Super Smash Bros
• Hogs of War
• The Binding of Isaac
• Shovel Knight
• Hey! Pikmin
• Gravity Falls - Legend of the Gnome Gemulets