First of all, thank you all for the replies!
Anyway, even though you got bored I think you should try finishing Paraiste Eve (awesome, awesome game) and Chrono Cross (probably my favorite jRPG ever). In both games the story is great and there are a lot of reasons to replay the games later - multiple endings in Chrono Cross and the Chrysler Building in PE.
My problem with Chrono Cross is the way it handles party members. You meet somebody, you enjoy his/her brief introduction story and puff, that's it. Character development does not exist. I didn't really like the battle system either. Actually, if you check people's opinions out there in the internet you'll see that they are very different. It's one of those "love it or hate it". I just grew tired of it. Oh and I wasn't really fond of the battle mechanics. Overall I think that Chrono Trigger is much better.
As for PE, I think you're right. I might give it another shot. I love the atmosphere in the game, Squeenix would be wise to bring the franchise back to life.
Too bad you got bored by Vagrant Story, it was really interesting and, at that time, it was refreshing to see Square doing something far away from FF.
Vagrant Story, it's weapon crafting system in particular, reminds me too much of the vanilla Oblivion leveling system. That is, without a guide on your first play-through you'll make a mess of everything.
I've heard the SaGa games are good. Legend of Mana is awesome, too.
What about FFTactics (particularly the PSP remake, War of the Lions?) and Front Mission 3 (wanzers!)?
I did play SaGa Frontier 2 back in the days but I can't remember crap about it apart from the fact that it had a really cool visual style :P. As for LoM, I finished it. My brother is an avid fan of the series, in fact he's playing it in this very moment.
I did forget to mention FM3 in my original post. I own it, I played it years ago and immensely liked it. I'd play it again but the problem is it doesn't work very well with PSP. Likes to crash during fights that makes it unplayable.
As for FFT, I own an imported ntsc psx version and the WotL as well. Tactics is one of my beloved games of all time with a plot that puts to shame most of the "regular" Final Fantasies. I've finished it over 4 times total.
What else...OH YEAH, get Suikoden 1&2 .
Really memorable characters, and some really fucked up villains in the second game.
I have Suikoden 1 which I found light years ago in some bargain bin of some God forsaken shop for a really pitiful amount of money. I loved it and finished it. Never got to play the second part though and somewhat lukewarm reviews put me off.
As I said, thank you very much! You've been very helpful. Now I need to choose something :P