If he's forced to justify the gamepad and that it's a source of headache, why does he and the rest of Nintendo insist on producing gimmicky shit? Miyamoto does have input on the design of Nintendo consoles, and it seems that in the past two generation, he's said something like the above. Either he doesn't want to force waggle on consumers, or that he's trying to justify something or another.
Here's a solution: stop trying to be cute with the controller and adhere to something conventional, instead of feeding us gimmicks and creating headaches for yourself down the line.
The thing is, contrary to the idea of Nintendo being a company that designs hardware around the wishlist of the greatest first party in the world, Nintendo is a company in search of USP, a Unique Selling Proposition. That thing which makes you different from all of your competitors.
Nintendo had total market domination with the NES, and they fought tooth-and-nail to try and hang onto that position, but at the first slip they lost ~50% to someone else. Holding on to what you have is hard. They revolutionized analog control in videogames, and a year later Sony took their idea and one-upped it. More lost marketshare. GameCube tried to do business the sensible way, but it just seemed to prove that Nintendo isn't very good at that.
Wii was a final desperation move, and it worked beyond Nintendo's wildest dreams. Nintendo's handheld dominance was seriously threatened by the PSP, and they came up with the DS, which became the biggest Nintendo product of all time. The lesson was clear, Nintendo needs big ideas that can't easily be copied by their competitors. That's why WiiU had the GamePad and 3DS had 3D. Because Nintendo feels they need to stay one step ahead with the gimmicks.
IIRC, I was watching a TV interview with Reggie back when Nintendo was high on Wii success, and the interviewer asked if now was a good time for Nintendo to try and solidify their comeback by embracing industry trends and shoring up places where they were obviously weak, but Reggie laughed at the idea of "industry trends", because Nintendo is the industry trend. Nintendo would only move beyond Wii when they found another USP worth moving to, and yes, after they do that they will obviously also include all of those niggling little wishlist items that the rest of the industry clamors for, because Nintendo is a benevolent ruler.
That's why I worry for Nintendo when I hear that people won't even confirm the nature of NX. They're still stuck on the idea that they need to be unique and revolutionary at all times in order to stand a chance.