Seems it's not just the monster level only though, the current abilities on the monsters are being overwritten as well, it's as if the monster itself is being completely reset. So I hope you're able to work around that issue.
Hopefully it'll be fixed soon, I can't wait to use the tool, thanks Jappi. :D
That's normal. The accessories are being injected into the Save, so it messes up the order of your inventory. Simply reorder it in-game, and re-equip the character's equipments. (at least it worked that way in FF13).
ehm , yeh i know , what i do with my tool is write completely new monsters...