I shoot the shafts without the arrowheads when I'm making a matched set. When I've got some that fly correctly, then I clean up the tips, cut a notch, and mount the arrowheads. Most of my stone arrow points are small bird points, so they don't affect arrow flight.
I've target practiced with stone tips only once or twice. I only shot the arrow once each time, just to check the flight. Worked great.
I've either given away, traded, or sold all my stone-tipped arrows and haven't hunted with them yet.