I haven't seen Kubo yet, but I don't know.
I have a lot of respect for Laika and all of what they do for stop motion animation, but almost everyone I know who has seen the film has been disappointed in terms of story and character, and it's kind of strange since they had really high hopes for the movie and they usually like Laika films a lot.
I guess I'll eventually see it and then I'll judge it for myself.
And I have to say that I would love it if Zootopia actually wins this year, I found the characters really likeable, the story was both clever and entertaining and I love the insane amount of creativity that was put into the concept and world building.
But yeah, I don't think that we should base these opinions in the Oscars. I think that at this point, we all know that The Academy is less concerned about quality and more about repetitive characteristics, like it's about the holocaust, it takes place in Hollywood, it's about slavery... And studios have realized this, so a new trend of movies featuring this characteristics has risen, not so much concerned about actual quality but more about creating movies that would appeal at the Academy.