This is similar on fft rebirth how do you change where the generic sprite is using a different palette? and i would like that to be use for all jobs like. monk is using palette 5 instead of 1. any help?
In FFTPatcher, if you go to the ENTD tab and select a battle , you'll see a box with the designated palette (1,2,3, etc...) and can change the colors of the enemies from there. If you want know how to change the colors of your regular generics, watch this (http://www.youtube.com/watch?v=f12qKI6-JsE&fmt=18) video by yours truly.
^, you'll only need to watch the first section of that iirc. Hope this helps :D