The twist at the end of Pokémon Omega Ruby and Alpha Sapphire doesn't just make the Pokémon timeline bonkers. It might explain some of the stuff that Pokémon fans have been wondering about for years.
For those of you that don't know, in the extra chapter included in Omega Ruby and Alpha Sapphire, players are introduced to a concept called "infinite energy." It's a type of energy that is made up of the same lifeforce that powers Pokémon. That's what makes it so problematic: people have used the energy to start wars, as well as to try to stop disasters, and along the way, many Pokémon have been sacrificed by humans for it. So while humans in the Pokémon games have figured out how to do things like teleportation, it comes at a great cost: the lives of Pokémon. This is the thrust of the conflict in the "Delta Episode" of Omega Ruby and Alpha Sapphire; it's your job to stop humans from using more infinite energy.
But how does this energy work, exactly? Redditor 0vi has a theory, which states that both humans and Pokémon alike can revert to infinite energy—and this explains a ton in the Pokémon universe.
I propose a model where Pokemon and humans are bound to this energy. When Human and Pokemon die they revert to this state. And any energy that escapes this life stream can turn into a human or a Pokemon.
That probably sounds absurd, but think about it. Look at the way, say, Pokeballs work. Every time they're thrown into battle, they release something that appears to be energy:
Given that Omega Ruby and Alpha Sapphire tell us that Infinite Energy powers damn near everything, what else could this be, other than Infinite Energy at work, or Pokémon reverting from infinite energy? 0vi writes:
It has been proven that humans are able to harness this energy and use it to create advance technology, hence the Devon Corporation. So it's very likely that humans created a device that temporarily Revert Pokemon into infinite energy and store them in a ball.
People have wondered how Pokeballs work for a long time...well, there's a potential answer. But, that's not the only thing that infinite energy could explain. Let's take a look at evolutions. Every time a Pokémon evolves, we see them transform temporarily into blobs of energy, like so:
What else could that be, other than infinite energy; Pokémon returning, briefly, to a more "pure" state before transforming into something else? There's even a possibility that infinite energy can affect humans, judging from that incident in Red and Blue, where Bill—the person behind the PC system—becomes combined with the body of a Pokémon. If that's true—if infinite energy can affect humans too, or if humans are also made up of infinite energy—it would explain why Pokémon suddenly become tame after you capture them. The technology makes it so that your infinite energy affects/rewrites the infinite energy of the Pokemon, effectively tying trainer and Pokemon together:
I mean they were wild Pokemon before we caught them and as soon as they are captured they are tamed? It really doesn't make sense, but what if once in the ball their mentality gets rewritten and gets matched to you, is this why we have trainer's IDs and why another poke ball would not capture my Pokemon because the ID doesn't match?
And given that infinite energy has the capability to resuscitate Pokémon, it opens up some crazy scenarios for humans, too. Can humans in the Pokémon world live forever, or be revived? It must be possible. AZ, the villain of X & Y, is apparently thousands of years old. Consider: he is also one of the people who has made the most use of infinite energy, having used to to power that awful weapon we hear about in X & Y. He can probably use energy to prolong his life, too.
These are just a few of the many wild things that infinite energy can explain in the Pokémon universe—you can read about a few more things here, in the original post. What I like about it is that it's essentially the Pokemon version of "theory of everything," which Wikipedia describes as "a hypothetical single, all-encompassing, coherent theoretical framework of physics that fully explains and links together all physical aspects of the universe."