In a recent interview with IGN, The Legend of Zelda: Breath of the Wild producer Eiji Aonuma and game director Hidemaro Fujibayashi discussed how pleased they were with their fans' speedruns and shrine skips. This might seem a bit out of character for a game producer and director to say, but a big part of open world games like Breath of the Wild is the loss of control devs have over what players do with their game post-launch. Open world games are ripe for content skips and speedruns because so much of the decision making power is left to the player. And it isn't like Aonuma and Fujibayashi don't know that. They definitely do. In fact, they seem to have wanted players to go about speedrunning and skipping around in game.
"That was definitely one of our goals. That's totally all according to plan," Fujibayashi told IGN. "A big theme of this game was that there should be multiple answers, multiple methods, multiple ways of doing anything. All the dungeons, we wanted to make it so that the players would be able to solve problems in any way they wanted to without us even being able to know what they would do to solve it."
"It had to be an environment where they could do things we couldn't predict if it would work," he continued. "So we have a lot of fun watching the videos and seeing people do things that we didn't actually predict and things that are totally unique. So yeah, it worked out."