It may be an annoyance, and you would want to bevel the back edge of the footings so they slide onto the shelf without catching, but the footings shouldn't affect arrow flight if the arrow is tuned to the bow.
Drawing the footing onto the shelf will also have the effect of moving the center of the arrow farther from the center of the bow (as if you built out the side plate). That would generally require a weaker arrow, but since your arrows are weak to begin with, it may help in the tune.
May need to raise your nock point a tad, but once the string is released, the arrow no longer touches the bow.
Make one up and see how it works. Good luck.