I agree, The First Movie is my favorite as well. But 2000 comes in a close second!
The second movie, Pokemon 2000, is by far my favorite but the first is great too (as is it's sequel special Mewtwo Returns)! I also enjoyed the eighth movie, Lucario and the Mystery of Mew.
It's a tie between the first movie and Pokemon 2000 for me.
[Tree=forensicfreak]
My answer is literally the exact same as haha! 2000 is my favourite by far, but Lucario and the Mystery of Mew come in close second.
My favorite Pokemon movie has to be "Pokemon 4ever" I love the story and it also contains my favorite legendary beast, Suicune ;u;

I think I'm gonna have to name 3 total oops "OTL, because I usually end up watching Mewtwo and 2000 back to back because they're tied for first, and after that is Lucario and the Mystery of Mew ^w^
Mine is the first one and the one with Diancie in it I think it was called Diancie and the Cocoon of Destruction.
Heroes and 2000 are my favorites! I haven't watched any after Lucario and the Mystery of Mew.
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Shocked nobody has said Pokemon 3: Spell of the Unown yet! It's my favorite by a landslide, as much as I love the other movies. It hits me hard, much in the same way The Lion King does. It makes me cry every time. In fact, most Pokemon movies make me cry. They made me cry when I was a kid and they make me cry now, as a senior in college.
In fact, let me rank the Pokemon movies by how much I cry when I watch them: -Pokemon 3: Spell of the Unown (cries about the dad) -Pokemon Ranger and the Temple of the Sea (cries at 2 different parts, when May is told she has to let Manaphy go and then when Manaphy goes) -Lucario and the Mystery of Mew (cries when Lucario is reunited with Sir Aaron) -Pokemon: The First Movie (cries when Ash gets turned to stone) -Jirachi: Wishmaker (cries when Jirachi leaves) -Pokemon 4ever (cries when Celebi dies) -Pokemon Heroes (cries when Latios dies) -Destiny Deoxys (the ONE Pokemon movie I've seen that, astoundingly, does not make me cry) and those are all of the ones I've seen.