Yep,I have the same problem, too.
I also possess PES3 and there never was a problem!
Furthermore I followed kinimod's read-me file how to use the AFS Explorer...
It seems as if several guys have this problem...Maybe there will be a new AFS Explorer version?!
Same problem here. I think that, unlike in PES3, the 0_text.afs file must stay the same size so if you increase a file size when rebuilding it, you may have to decrease the file size of something else: i.e. a kit of a team that you don't use