3. Lufia II
4. Megaman Battle Network series
5. Shin Megami Tensei - Nocturne
Oh yeah forgot about that one. I loved Golden Sun too. It was an amazing game. I remember how I hyped I was waiting to play it. Same with the original Pokemon Red/Blue.
1) Tales of the Abyss
5) Chrono Trigger
Don't get me wrong though. For four of five to be so well known makes it sound like I barely play the genre... so I gotta give my honorabe mentions to stuff like Trails in the Sky, Terranigma, Disgaea 4, Xenoblade Chronicles, Xenogears, Tales of Symphonia, Earthbound, Mother 3, Eternal Sonata, Vagrant Story, Baten Kaitos, Xenosaga, Breath of Fire III, Persona 4, Ar Tonelico, Tales of Eternia, FFIV, FFIX, FFX, FFT, and the entire Ys series. I could go on really. So I will.. Skies of arcadia, Shadow Hearts, The Last Story, Tales of Vesperia,
I feel so crappy picking three FF games in my top 5. They're just really damn good to me though.