wait is it?, i'm assuming you're using the english patch for it, because the original is fine in my eyes, idk if changing the fonts on rpgmaker '00 is as simple as just dragging some files, i'm going to see if there's a fix for it

From what I recall from playing it years ago, when I applied the font that came within the folder of the game, it still looked like some letters still had that weird bold layer over the letters, but it was still much very readable and playable till the end of the game. Version I played was the 2009 version that was on rpgmaker.net.