Hi-
I think it would be easiest to test this in steps to determine what the problem is. Also, I have to guess that using the standard meshes should be the best option, if there is no particular reason to require some other mesh resolution.
The following three things would be quite useful:
A) Could you please also post the results of what your AFNI version is-- the output of "afni -ver". I looked at your previous thread, and there was a question about what version you were running, and I don't see that information ever posted there. I think we need to know that, as well, here. This is really important to know.
B) Could you also please try the SurfSmooth command I sent, above. That command is modeled on your Surfsmooth command from your previous post (only the "-input .." file differs), so that is a good place to start.
C) If you can paste your commands for what you were trying earlier with the standard meshes created by afni_proc.py, with the exact error messages, then we can try to address that.
--pt