Updated the plug-in to the newest.
The old problem with the reader not being able to see/find the files is still showing once in a while, but is going away after 1-2 minutes after saving the fsh.
I can insert the fsh into the dat filesī in the reader, this is what is showing in the game:

If I reopen the fsh in FiSHMAN and save it again, then the textures shows up.
The files are save as DKT3 Compressed with alpha, with and without the FshWrite Compression.