Yeah, Nintendo seems to hate to do anything with their old games to improve them in any way. They just want to dump them on the VC as is, and to hell with whatever they could do to make the game better.
Another good example is NES lightgun games like Hogan's Alley where it has two optional modes of play where you can use the light gun, or you can use the NES controller. Since the classic controller can't function as a light gun Nintendo stripped that mode completely out of the game, so know you can only use the crappy NES controller mode to play the game, which is a bunch of crap because the wii remote makes an excellent light gun and could have been retooled to work in that way, but Nintendo didn't want to put $200 worth of effort (or whatever small amount it would have cost) to make that happen, so we ended up with a piece of crap instead.
But meanwhile, like you said they have no problem with stripping things out. But when it comes to making a simple tweak or addition they just refuse..