However, in this list I tried to focus on actual games:
- capturing parts of a real scientific phenomena,
- AND actually playable (you can play for fun, not "for classroom only").
[OK, maybe "Parable..." is here a stretch, but I could not resist adding it.]
(And, for example consider Falstad's applets as one of my biggest inspirations ever - especially the Ripple Tank and the 1D Quantum Mechanics; but also electric circuits are very nice, and inspired things like iCircuit!)
Interactive tutorial on sequent calculus: http://logitext.mit.edu/logitext.fcgi/tutorial
Math and Physics applets, mostly on wave mechanics (Java) http://www.falstad.com/mathphysics.html
Ancient Greek Geometry http://sciencevsmagic.net/geo/
Dragonbox (iPhone game to teach algebra to kids) http://archive.wired.com/geekdad/2012/06/dragonbox/