Hello,
 
So I am actually having a similar problem as you did at first. I am using the VBM8 toolbox in SPM8. I have manually reoriented all my images to the ACPC line, matching it to the DARTEL template (Template_1_IXI550_MNI.nii or something along those lines). When I want to run my Estimate and Write batch, it still gives me the error message spm_affreg.
 
I am out of options and can use some advice.
 
Thank you,
Rayana