First details about the 16th movie indicate that the previous Mewtwo of "Mewtwo Strikes Back" and "Mewtwo Returns"
in fact never existed.

>http://pokebeach.com/2013/07/new-pokemon-revealed-following-genesect-film

Ash asked Mewtwo who she is. No one had ever seen a Mewtwo before.
Mewtwo was cloned from Mew by different scientists, who are evil, then unintentionally blew up their lab and killed them after they were shocking her with electrodes and she was trying to push them away.

Thoughts? Looks like Yuyama doesn't give a fuck about Shudo's work anymore.