Let's remember that those games came in cartridges that were very expensive to manufacture. As games got physically bigger in the SNES, the prices had to go up, just to pay for the hardware.

After the SNES era, we saw how Playstation games were quite a bit cheaper than N64 games, but it had nothing to do with Nintendo wanting to make more money per copy: It had to do with the fact that pressing CDs was cheap as dirt, so the game developer would get as much money, per copy, despite a cheaper price.

With the switch to downloadable, we can save even more than that: The cut from the retailer, the distributor, the box manufacturing... You could cut at least $20 from a game, easily, and still get the publisher the same cut.

If you want to talk about game pricing without dealing with fixed non-development costs, you are comparing apples and oranges, on purpose.