Bondo would be a good solution.
First sand down the paint on the panels and buy a sticky net tape, like a metal mesh tape and tape up the holes on the inside. Then apply bondo on both side. Smooth out the bondo on both sides with a spreader and sand down with 400 grit(or 80 to 120). Put a few coats of primer, and then your favorite paint and voila. Bondo fixes dents, holes, scratches and is comprised of unsaturated polyester resin, styrene monomer, talc, non-asbestiform, magnesite, and fibrous glass. Bondo dries in about 30 minutes depending how much hardener you add to the compound. Very stinky stuff I got mine at Kraagen Automotive store for like $5 which I use to fix mat board bases for 3D designs.
My solution was gonna be to first sand down the holes on the inside of the panel (So it's flat and not bumpy). Then buy a small sheet of aluminum or tinted lexan at home depot and glue or tape it on the inside of the panel.