That is absolutely something that Nintendo would do. If Skyward Sword is anything to go by, awful motion controls have never stopped Nintendo from including them.
I dunno if it would become my least liked Zelda game, but the quickest way for a Breath of the Wild sequel to lose my interest would be to give it a standard Zelda plot. The last thing I want after Breath of the Wild took steps towards something actually interesting is for the series to regress...