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I picked Mewtwo because I always thought Mewtwo as cool. He may of tried to harm Pokemon but realized he can't take over the world and manipulate everyones minds. They should of just thrown him in the penatentery lol.
For me I'd have to say it's a toss up between Zapdos and Moltres, if we're strictly talking the Gen III games. I used both of them on and off in my Fire Red playthrough, but didn't use Mewtwo or Articuno because I already had Pokemon of those types on my team, and I had no way to access Mew (legally, anyways).
I picked Moltres, the amazing phoneix. Phoneixs have always been one of my favourite creatures, their beautiful and powerful. Moltres is a phoneix and also can do tons of damage if you don't pay attention carefully.
Mewtwo. As a kid, I was so excited for the first movie and to me, he was always THE Legendary Pokemon. The single best Pokemon. So he always struck me as the most "legendary" I guess you could say, but something about him will never leave my mind as him being the best there ever was.
I choose Mew because its a cute and funny Pokèmon. However, Mewtwo looks badly created since it used Mew DNA >:
But I like using Mewtwo as well at Competitive battle :>
Articuno: I love winter and anything connected to it so yeah, ice is tied with water for my favorite type even though I feel Game Freak should have just made them one type(same with Rock/Ground/Steel and call it "Earth" type).
Mewtwo: blame the anime and Super Smash Brothers. They just made him(it just seems male to me) so interesting.