Good topic. I could list a lot more than ten (and I'll do just that by cheating with honorable mentions). I'll limit myself to one game per series too. These ten aren't in any particular order. They're all excellent.
Chrono Trigger- Chrono Cross equally good, better in some ways
Super Castlevania IV- hard to pick just one Castlevania
Earthbound- nothing like it, and I love it. It's nuts.
Ecco the Dolphin- again, unique sound. Tides of Time is probably better.
Ico- seeing a trend? The little music that's in this game, is awesome. Really enhanced the mood.
Halo- many things you can complain about when talking about Halo, the music was not one of those things.
Phantasy Star Online- in the hundreds of hours spent playing this game, I never once played with other music playing. Forest music is so soothing.
Final Fantasy III- my favorite Final Fantasy also has my favorite Final Fantasy music. Crazy, I know.
Megaman 2- probably the best example of good old school action game music. Except for Ducktales moon music (see below!).
Sonic CD- U.S. soundtrack. Best Sonic soundtrack, although SA2 comes close in my opinion.
Honorable mentions:
Ducktales- Moon music. 'Nuff said.
R4: Ridge Racer 4- I liked this a lot, not quite sure why.
Shenmue- Nice epic soundtrack. Added a lot to the experience.
Starcraft/Diablo 1&2- Fantastic music. Tristram music from Diablo is haunting and amazing.
Super Mario World- Great music for a great game.
Panzer Dragoon Series
Tenchu series
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