Nintendo's cat-and-mouse game with homebrew exploits isn't over yet. The gaming giant recently pulled Terry Cavanagh's retro platformer VVVVVV from the 3DS eShop after Shiny Quagsire discovered a way to use the game to run your own code. It's not a direct method, as you need another exploit for this to work (such as in the browser or another game), but that apparently doesn't matter to Nintendo.
Via: Polygon, Nintendo Life
Source: Shiny Quagsire (Twitter), Wololo.net, Doyouevenknow.us