I came across this message because I was wondering whether it is possible to change the voxel size during "Estimate & Write" or "Apply Deformations" step as well.
Such an option would be really great. It could be used for biological parametric mapping (BPM) analyses. In this case a voxel size of 2 mm would probably be adequate, at least comparable to other fMRI studies.
Already waiting for the next releases :-)