PokéBase - Pokémon Q&A
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I was playing my copy of Let's Go Eevee, and caught three Eevee on Pokemon Road. One I evolved into Vaporeon, one I evolved into Jolteon, and the other I evolved into Flareon. Before doing this, I checked my Pokedex and saw that I had not caught or registered those three Pokemon before. I then placed the Vaporeon in the Pokemon Daycare, and left to try to Catch Combo Magikarps to find a shiny Magikarp. After I found one (yay!) I went back to the Pokemon Daycare. The lady said my Vaporeon had gained a level (getting it to Level 40) and I took it back. When I went into my Pokemon Box, there were suddenly two Vaporeons. One was at Level 40, and the other at Level 39. Both had the same moveset, and almost identical stats.

Please note that I have never traded with myself or anyone else, never caught more than those three Eevees (apart from the one at the start you are required to catch) and I do not play with cheats. How did the second Vaporeon get into my game?

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Are your other Eevees and Eeveelutions still there?
I still have the main Eevee from the start of the game, just not in my party. The Jolteon and the Flareon are there as well.

1 Answer

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You might have ran into a glitch called "Cloning glitch". As per of Bulbapedia, this glitch lets you to get an exact identical of a Pokémon. However, this was only recorded for Genarations I-VI and VIII. It has never spotted in VII. Methods for activating this glitch varies in each generation. Here this amazingly happened to you even though it's impossible!

Read this

Storage system move method

The player can also exploit the move function within a box to clone a Pokémon. The box must not be full or it will cause the Pokémon to disappear. The player should select the Pokémon they wish to clone, select "move" and move it to somewhere else within the box. During the time that it is saving, the player should count three to five seconds then disconnect the power. This will result in a clone.

This is the most similar to the glitch happened to your game (though they aren't exactly the same). Perhaps, this clone glitch may happen in Gen 7, but nobody except you might have experienced it. Try doing so again with another Pokémon and check whether this happens again or not.

Thank you!

Source

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edited by
I don't know what happened, but I'm almost certain this isn't it. The only time I saved was after getting the Magikarp. I didn't turn off the game until later, and the cloning glitch you've shown seems to only work in the boxes.
Oh mine! I made a mistake again!! I'll edit it.
New update: This glitch have now been recorded in Gen 8 (Sword/Sheild). I'm pretty sure you can find it in this game too!