A few picks from my collection:
Crimson Tears is a fun title with a definite "Streets of Rage meets RPG" feel to it.
Echo Night Beyond is a decent, slower-paced horror title. The character visuals haven't aged well, but the atmosphere and setting are still intriguing and creepy.
Jade Coccoon 2 is a good, Pokemon-esque title. Highly recommended.
Nightmare of Druaga: Fushigino Dungeon is a great dungeon crawler that mixes old-school challenge and atmosphere into one convenient package.
Ribbit King is the probably most oddball sports title in recent memory. It's golf, in a candy-coated universe. Instead of hitting a ball, you swat frogs over a variety of obstacle-and-bonus-filled courses. It's refreshingly addictive, and can be found for about 5 bucks.
Seek and Destroy mixes heavy tank action with a console RPG. You complete missions across the landscape, but also roll around 3D towns and socialize with the residents. Did I mention that all of the characters are sentient vehicles?
Tons of customization and a lot of things to do on the side add longevity to the game which, unfortunately, is quite short. It can be found for about 3-5 bucks normally.
Future Tactics: The Uprising - A 3D, turn-based strategy game that mixes elements of action games into the mix. Again, this one can be found fairly cheaply.
Road Trip: A CarPG from the creators of Seek & Destroy. You control a sentient car again, and wander the world as you move from race to race. The translation isn't the best on earth, but the game itself is quite fun. A huge overworld to get lost in, a ton of things to do, and a plethora of customization options add to the overall finished product. Again, this one sold fairly poorly, and can be found for 3-8 bucks at most Gamestops.