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Didn't Ho-Oh not only revived the "unnamed Pokemon" and gave them the powers of Electric, Fire and Water?
It disproves Vaporeon, Jolteon and Flareon being turned into Raikou, Suicune and Entei because they already had the powers. But it doesn't disprove 3 Eevees dying and being revived into something more powerful than the common eeveelutions