Hello Mary & Alfonso,

I have the same question, and an additional question based on the results of experimenting with this option.

I'm currently using Conn v14n with SPM12(6225).
And when I check the option "Apply structural deformation fields to optionally coregistered functional images", after adding a coregistration step to the default MNI preprocessing pipeline, my structural and functional images are getting normalized in a truncated fashion(as shown in the attached image).

(Mary, have you observed any similar truncation of the structural/functional images for your data?)

Is this because the bounding box size is specified differently for this option? Or, am I using it incorrectly.

Thanks again for your active support Alfonso. Really appreciate you taking the time to answer our questions.

Prady