I just performed my fenderectomy so I thought I'd throw up a few photos. I have the FE and the SW-Motech skid plate.
I spent some time under the bike measuring, eyeballing, comparing angles, etc. and finally decided that I was comfortable with the clearance if I removed about 1" from the FE. This preserves about 80% of the total length/protection of the FE.
I also wanted to duplicate the general curve of the bottom lip of the FE with my cut line to make it look unmodified. This was pretty easy to do by first tracing the outline of the curve on a cardboard template, cutting the template, placing the template about 1" higher on fender, then marking a cut line. I used a cutoff wheel on a Dremel to actually make the cut and then cleaned up with files and sanding blocks. Unless you look very closely, it looks factory.
Good luck with your fenderrectomies.
- Mark