[Freesurfer] Motion correction for SPACE FLAIR

Dear All,

We recently implemented pial correction using T2 space FLAIR with freesurfer v 5.3, mostly successfully. We use 2-3 MPRAGE (sagittal + axial and/or coronal) volumes as 001.mgz, 002/003.mgz for the motion correction step in recon-all pipeline. The typical times for acquiring space FLAIR in our settings vary from 2.5 to 6 min, depending on the resolution/NSA no. I was wondering how freesurfer deals with motion artifacts in the space FLAIR sequence (especially with longer acquisition times), and if there is a strategy to minimize motion distortion with these (such as getting second runs for averaging, etc). Please advise,

Octavian.