Games that I personally run:
• Inertia - https://www.speedrun.com/Inertia/individual_levels • Sayonara Umihara Kawase - https://www.speedrun.com/sayoumi/individual_levels (2D) • Kishin Douji Zenki: Batoru Raiden - https://www.speedrun.com/kishin_douji_zenki_batoru_raiden/individual_levels (2D) • Boktai: The Sun is in Your Hand - https://www.speedrun.com/tsiiyh/individual_levels • Vanquish - https://www.speedrun.com/vanquish/individual_levels • Squirrel Sphere - https://www.speedrun.com/Squirrel_Sphere/individual_levels
Racing games often have many ILs. One game I run : https://www.speedrun.com/stk/individual_levels
While not 3D Airblade for the ps2 has IL select and the leaderboard goes by ingame time. https://www.speedrun.com/AirBlade
Do you like 2d platformers? Both these games have a lot of IL's:
Super Lumi Live: https://www.speedrun.com/Super_Lumi_Live
OCTAHEDRON: https://www.speedrun.com/OCTAHEDRON
Check out The King's Bird on Steam. It's a technically deep and rewarding platformer with a solid art style and tight controls. It has 80+ individual levels (with leaderboards). I started running it a couple weeks ago, I got my first IL record a couple days ago. Shooting for records on all levels. https://www.speedrun.com/The_Kings_Bird
Also check out www.superninjaslash.com. It's yet another technically deep platformer, and one I happen to have the WR for. It's free, and it tracks your time in-client. Technically it has 9 individual levels, but the run is so quick once you learn the route, you'll be aiming for <1 minute completion of the game (all 9 levels). It's still easy and fun to practice one level at a time, though.