If you ask me, if you design a game in such a way that the control scheme needs a stand to not give you carpal tunnel syndrome, there is something FUNDAMENTALLY WRONG WITH YOUR GAME.
The solution is cheap plastic... its free. People have probably propped their 3DS on random shiz since it was released. It's not the game's fault, its the system's fault.
Actually, if they didn't include the stand, the blame wouldn't have ever come up, and it'd just be 3DS hate. The stand is a good thing all around.
Think about Resident Evil: Revelations and Snaker Eater 3D... you have to buy the circle pad pro for $20, if you want that control option. Option. Optional.
Its probably arrogant of them to provide the stand, because they are basically saying "we know you're gonna love this game so much that your hands will start hurting, so heres a little something, on us..." =P