This is a list of games with 3D graphics which run at 60 frames or 60 fields per second on 5th generation consoles.
Some games aren't fully 3D or only have special modes featuring 60 fps support, so they will be listed and described as such.
Atari Jaguar (1993 Hardware)
BattleSphere (2000) (Variable frame rate which peaks at 60 fps)
BattleSphere Gold (2002) (Variable frame rate which peaks at 60 fps)
Total: 2 games
Sega Saturn (1994 Hardware)
All-Japan Pro Wrestling featuring Virtua (1997)
Clockwork Knight: Pepperouchau's Adventure (1994) (Characters are 2D sprites; 2D gameplay)
Clockwork Knight 2 (1995) (Characters are 2D sprites; 2D gameplay)
Dead or Alive (1997)
DecAthlete (1996)
Digital Dance Mix Vol. 1: Namie Amuro (1997)
Fighters Megamix (1996)
Fighting Vipers (1996)
Guardian Heroes (1996) (Seems to be using 3D floors)
Goiken Muyou: Anarchy in the Nippon (1997)
Last Bronx (1997)
Layer Section II (1997) (60 fps but with some heavy slowdown at times)
Mass Destruction (1997)
Panzer Dragoon II Zwei (1996) (Only cutscenes are 60 fps but they're rendered in real time)
Radiant Silvergun (1998) (Some characters and items are 2D sprites; 2D gameplay)
Savaki (1998)
Shinrei Jusatsushi Taromaru (1997) (Several backgrounds and some platforms are 3D)
Skeleton Warriors (1996) (Characters and several items are 2D sprites; 2D gameplay)
Street Racer Extra (1996)
Tempest 2000 (1996)
Terra Cresta 3D (1997)
Thunder Force V (1997) (Enemies and some background objects are 3D)
Virtua Fighter 2 (1995)
Virtua Fighter Kids (1996)
Zero Divide: The Final Conflict (1997)
Total: 25 games
Sony Playstation (1994 Hardware)
Agent Armstrong (1997) (2D sprites in a 3D world)
Battle Arena Toshinden 3 (1996) (60 fps mode is optional and non-textured)
BattleSport (1997) (Some items are 2D sprites)
Blockids (1996) (Static 2D backgrounds and 2D characters; fully 3D table)
Bloody Roar (1997)
Bloody Roar 2: Bringer of the New Age (1999)
Boxing (2000)
Colin McRae Rally (1998) (Hidden feature and it's limited to Time Trial and Rally modes)
Critical Blow (1997)
►Game sample recorded at 60 fps and additional info available here.
Crime Killer (1998)
Dance Dance Revolution 5th Mix (2001)
Dead or Alive (1998)
Doraemon: Nobita to Fukkatsu no Hoshi (1996) (Player's characters and items are 2D sprites)
Dynasty Warriors (1997)
Ehrgeiz (1998)
Einhander (1998) (2D gameplay)
Fighters' Impact (1997)
Fighting Illusion K-1 GP 2000 (2000)
►Game sample recorded at 60 fps and additional info available here.
Fighting Illusion V: K-1 Grand Prix '99 (1999)
Fighting Illusion: K-1 Grand Prix '98 (1998)
Finger Flashing (1999) (Just the floor is 3D but it scrolls at 60 fps when you run)
Floating Runner: Quest for the 7 Crystals (1996)
►Game sample recorded at 60 fps and additional info available here.
Forsaken (1998)
Funky Boxers (2002)
G-Darius (1998) (Bullets and other items are 2D sprites; 2D gameplay; slowdown may be heavy)
Ganbare Goemon: Kurunara Koi! Ayashige Ikka no Kuroi Kage (1998)
Garou Densetsu Wild Ambition (1999)
Gauntlet Legends (2000) (60 fps but with occasional slowdown)
Geom Cube (1994) (Bare bones Blockout-esque 3D graphics but solid 60 fps nonetheless)
Genei Tougi: Shadow Struggle (1996)
►Game sample recorded at 60 fps and additional info available here.
Goiken Muyou II (1998)
Gran Turismo (1997) (Hidden Hi-Fi mode, which is Time Trial-only and limited to a few tracks)
Hard Blow (1997)
Hermie Hopperhead: Scrap Panic (1995) (3D bonus levels are solid 60 fps)
Hyper Final Match Tennis (1996)
I.Q. Final (1998) (Empty background; fully 3D table and character)
I.Q.: Intelligent Qube (1997) (Empty background; fully 3D table and character)
Invasion From Beyond (1998)
iS: Internal Section (1999)
K-1 World Grand Prix 2001 Kaimakuden (2001)
Kamen Rider (1998)
Kamen Rider Agito (2001)
Kamen Rider Kuuga (2000)
Kamen Rider Ryuki (2002) (60 fps but with occasional slowdown)
Kamen Rider V3 (2000)
Kensei: Sacred Fist (1998)
Kickboxing (2001)
Klonoa: Door to Phantomile (1997) (Characters and several items are 2D sprites; 2D gameplay)
Kula World (1998)
Landmaker (1999) (Only the console-exclusive modes are 3D; bare bones graphics but solid 60 fps)
Lattice: 200EC7 (2000)
Mad Stalker: Full Metal Force (1997) (Only the floor is 3D)
Magical Date: Doki Doki Kokuhaku Daisakusen (1997) (Most of the mini-puzzles run at 60 fps)
Micro Machines V3 (1997)
Mortal Kombat 4 (1998)
Moto Racer (1997) (30+ variable frame rate reaches 50-60 fps in some spots and often in time trial)
Motor Toon GP R (1996) (Motor Toon Grand Prix 2's mini-game)
Motorhead (1998) (60 fps mode is optional and limited to 2 AI cars)
Muppet RaceMania (2000)
N2O: Nitrous Oxide (1998)
Night Raid (2002) (Some backgrounds and items are 2D; 2D gameplay)
Omega Boost (1999)
One on One (1998)
Pong: The Next Level (1999) (30 fps prior and after the match but solid 60 fps during the gameplay)
PowerSlave (1997) (30+ variable frame which peaks at 60 fps in some areas)
R-Type Delta (1998) (2D gameplay)
Rapid Racer (1997)
Rascal (1998)
RayCrisis (2000) (60 fps but with occasional slowdown)
RayStorm (1996) (60 fps but with occasional slowdown)
RC de GO! (2000)
Ridge Racer Turbo (1998) (R4: Ridge Racer Type 4 bonus disc; the arcade game limited to 2 AI cars)
Rival Schools (1998)
Running Wild (1998)
Sanvein (2000)
Shake Kids (1998) (2D sprites in a 3D world; combo screen run at 30 fps, the rest of the game is 60 fps)
Shin Nippon Pro Wrestling: Toukon Retsuden 2 (1996) (Using a cheat, single matches-only, no background and no judge)
Shin Nippon Pro Wrestling: Toukon Retsuden 3 (1998) (Optional, single matches-only and no judge)
Shiritsu Justice Gakuen: Nekketsu Seishun Nikki 2 (1999)
Skeleton Warriors (1996) (Characters and several items are 2D sprites; 2D gameplay)
SlamScape (1996)
Street Fighter EX 2 Plus (1999)
Street Fighter EX Plus Alpha (1997)
Street Racer Extra (1996)
Tekken (1995)
Tekken 2 (1996)
Tekken 3 (1998)
Tempest X3 (1996)
The Granstream Saga (1997)
The Helicopter (2000)
Trash It (1997) (50 fps PAL-only release, characters are 2D sprites; 2D gameplay)
Thunder Force V: Perfect System (1998) (Enemies and some background objects are 3D)
Tobal 2 (1997)
Tobal No. 1 (1996)
Tomba! (1997) (Characters and several items are 2D sprites)
Umihara Kawase Shun (1997) (All platforms are 3D)
Umihara Kawase Shun: Second Edition (2000) (All platforms are 3D)
Victory Boxing (2000)
Virtual Hiryu no Ken (1997)
Vs. (1997)
Xevious 3D/G (1997)
Zen-Nippon Pro Wrestling: Ouja no Kon (1999)
Zero Divide 2: The Secret Wish (1997)
►Game sample recorded at 60 fps and additional info available here.
Total: 103 games
Nintendo 64 (1996 Hardware)
Dark Rift (1997)
F-Zero X (1998)
Gauntlet Legends (1999) (30+ fps variable frame rate which may peak at 60 fps)
Killer Instinct Gold (1996) (2D sprites and 2D gameplay in a 3D world)
Mortal Kombat 4 (1998)Dark Rift (1997)
Virtual Hiryu no Ken 1.5 (1998) (included in Flying Dragon) (variable frame rate which may peak at 60 fps)
Total: 6 games