I recently found this:http://ffhacktics.com/smf/index.php?topic=10443.0
This method worked wonders for me. The only difference is that I was patching directly to the modded ISO and saving a ffttext file just for backup using only one FFTacText (ver .457). As pointed before, the trick is to patch directly and not using a ffftext file.
A call to the mods, this needs to be stickied. It took sometime to find something useful like this.
This will help a lot to the newbies like myself who would like to do something with WOTL and can't find enough info.