Of course Pokémon isn't fully owned by Nintendo (they own about one third in fact), however Nintendo does hold considerable
influence over the franchise, and considering their trigger - happy cease and decease nature, it's hardly surprising Pixelmon was finally taken down.
Traditional publishers enjoy a near - monopoly of their products in
franchised and independent book stores because of the deals they can make regarding return of product, discounted prices, and the fear books store owners harbor
over Amazon's expanding
influence over the market place.