The rarest Pokemon is Arceus. It is not yet in the Pokedex on the website.
But in the first movie, it said MEW was rarest... so MEW is rarest... but wait the made a bunch of Pokemon that are distribution only, like, JIRACHI, DEOXYS, and SHAYMIN to name a few. So I think those ones are equally the rarest Pokemon of all!
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Celebi because it's the only Pokemon of the current 493 not to be in any of the 4th gen games or to have been distributed at an event.
there is no rarest Pokemon you have to train and train and including shinies there is no real rarest Pokemon at all.
By far, they have said Celebi is the hardest/rarest Pokemon to obtain outside of Japan.
no joke it is celibe
kyogre rayquaza and groudon
On Diamond and pearl you don't really see many fire Pokemon or electric types. But really the rarest ones are legendarys. Also Garydos is a good Pokemon hard to get without super rod