Well done with getting the photos up. I think that by the time you have quilted in the ditch, a lot of that will have disappeared, as the seams will be pushed down, and the batting will push up the centre of each patch. Why not try it with a few hand stitches around one or two patches, (not even the whole block) to see if you get the desired effect. If that works, then machine quilting it should do the same thing. Using a walking foot would be preferable, so as to avoid pushing the fullness along.