I apologize for the long silence. I have had a pretty intense year with not much free time, but I was finally able to put together a little script which processes the images in a new way to avoid some of the "black pixel" bugs of previous versions and also uses the new photo method I was talking about before. I still have some things I would like to do with this like refactor it in Haskell to add parallel processing of scenes and add support for FFVIII.
Unfortunately it looks like I won't have much time to do that for a while so I figured I should share what I have so far. The script is written in bash and expects the palmer exported files to reside in "~/FFVII_fields". I have not tested this on a Windows environment at all but it may work.
This script depends on the ImageMagick suite, as well as Potrace for layer tracing and waifu2x-cpp-converter and will fail if they are not found in you PATH.
Check it out here.https://github.com/timde9/ffvii_frp