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My guess is pokemon meant for meditite to be a sinnoh pokemon that migrated to hoenn, Meditite seems more widely obtainable in sinnoh. I never noticed this but that is interesting. Don't forget that every pokemon has a story behind it.
However, Meditite are incredibly common in Sinnoh, so much you can even get wild Medicham. In Hoenn...not so common. So I'd generally refer to Meditite as being a Sinnoh-native pokemon, due to rarity in Hoenn
I once read about this on Bulbapedia. Their explanation was also something about being more common in Sinnoh. And that does sound like a good reason, although it is odd...