PokéBase - Pokémon Q&A
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For example, Pokemon from the games gold, Silver, Criytal to Ruby, Sapphire, Emerald.

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What is the question being asked here?
You can transfer them if you use cheating software.

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Yes, due to a restructure in how Pokemon stats work, and a platform switch, there is a hard stop between them. You can't transfer from Gen 2 to gen 3.
Also, a lot of new mechanics were introduced in gen 3.

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This was because of max IV changes from 15 in gen 1 to 31 in gen 3. And also what helix said
Also, Natures, Abilities, Birch's Theorem, Etc. That is why they made Red/Green remakes, to get all of the old Pokemon :P
I've written, a lot of new mechanics