i don't mark the quilt where the binding will end up i just eyeball it.
i always trim my quilts again before binding and i found that when i stitched all the way to the edge the threads would be cut in many locations without the ability for me to knot them off or bury.
since most of my work is sold i have a fear that the quilting will unravel somewhere down the line in my clients homes.
so i really do try to keep the quilting threads out of the way of my cutting and squaring before i put the binding on.