Hi guys

So both scans were in the same space/session, so alignment should have started from a good place. Interestingly, the SAME image file becomes misaligned in this case only in the CONTEXT of being overlaid atop another image in AFNI viewer space. I am uploading the source images to get to Paul for an examination.

In general, for years, despite always collecting my T1 structural in the same session and head positioning as task-fMRI when I do align_py kinds of coregistration steps, AFNI keeps giving me errors that the centers of the respective images are always 4-5 cm different in space, which simply can't be. I wonder if there's some positioning information being transmitted by our Philips scanner that is telling AFNI one of the scans is a different FOV or something...