The only problem I had with Vagrant Story was how you needed an encyclopedia beside you when you were equipment synthesizing, otherwise, equipment making was one big shot in the dark.
Another problem I had was how the game never explicitly tells you that element and weapon type are the BIGGEST factors on damage given to enemies and how enemy-weapon attributes constitute near nothing to damage dealt. That was lame, since the first few times I tried to play through the game, I concentrated on using weapons aligned to certain enemies, but to no avail, as the weapon type or element didn't match.