Kickback plates are fastened with short, casing style head, nails and those leave 1/8" wide grooves about 1/16" deep and maybe 5/8" long. This damage is usually only seen on balls that end up next to the kickback plates in the flat gutters... i.e. shooting spares...
If the damage you are seeing looks like the diameter is about 1/2" and is very shallow, you're probably looking at a missing "plug" over a screw that is used to hold down the synthetic panels.
If you could accurately roll a ball straight down 20, you might hear the ball run over quite a few of these plugged holes as it traveled down the lane. If the plug is in place it should not cause an issue, but if the plug is missing it can cause damage similar to what you're describing...