Hello again Doug,

Thank you for sending the updated version of mri152reg. It ran without
error and generated the reg.mni152.2mm.dat registration matrix.

Unfortunately though, when I tried to apply the transformation to the same
subject's t_000.bfloat, the registration is not correct (command below).

mri_vol2vol --inv --targ /.../t_000.bfloat --mov
$FSLDIR/data/standard/MNI152_T1_2mm.nii.gz --o
CD_cerv_pat4_sess1_tstat1_MNI152.nii.gz --interp nearest --reg
/.../CD_cerv_pat4_sess1_recon/mri/transforms/reg.mni152.2mm.dat

On a positive note, I was able to load the output image and
MNI152_T1_2mm.nii.gz within fslview, but the functional data seemed to be
shifted too far anterior.

With my next attempt, I used mri_convert to make the t_000.bfloat into a
.mgz and than ran mri_vol2vol, but the same misalignment occurred (see
attached photo).

Using tkmedit, I have confirmed that this file aligns properly on this
subject's native structural image, so I am not quite sure why the
registration matrix may be off. Given that the reg.mni152.2mm.dat file
reflects the transformation of the native struc to MNI, I wonder if I need
to account for the reg file between the func data and the native struc?

Can you please let me know what I may be doing incorrectly?

As always, your help is very appreciated.

Jacob