[Freesurfer] reg-feat2anat: major failure

Hi Freesurfers, I've run reg-feat2anat to register my FSL FEAT data to the freesurfer anatomical data. And for most subjects the registration needs a little manual editing (which sometimes includes stretching). But for a few subjects, registration is terrible, e.g. coronal is switched with horizontal or orig surfaces are completely off the FEAT brain.

So I looked into my original FEAT directory and FSL's registration between example_func to standard looked fine, but example_func to highres failed.

Is there a way to use Freesurfer to register example_func to high res for use in a FEAT analysis so that later reg-feat2anat works?

Thanks. Michelle