Just print as many shelves as you have games and a single top.
The NES and SNES are a little thinner than I would have liked but this thickness filled out the cubical shelves I'm using quite nicely. Use a little glue on them if you plan on moving them around a lot.
NOTE: I have not printed the GB (without hard cases) or the GBA but I modeled them on the GB (with hard cases) as shown in the pictures.
The author marked this model as their own original creation.