You seem strangely bothered by it.
I can't speak for everyone, but it's just a matter of organizing my collection for me. That's why I also prefer to buy all my PC games on Steam instead of spreading through Origin, uPlay, GOG, Windows 10 Store, etc. if I can help it. Your comparison isn't really valid, since things like multiplayer activity, performance and platform obsolescence play a much greater role in that case than here. Even if the 3DS doesn't look as good as the other two versions, we're talking about a Visual Novel. So, really, as long as it doesn't crash and burn, I'm fine with less visual quality.
And besides... who the fuck would buy CoD: Ghosts of all CoD games?