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Here's my stance on Gen 3
>No complete National Dex
>No Eevee (Fatal Marketing flaw, thinking it would influence the sales of Pokemon Colosseum)
>Lost important game mechanics
I know Pokemon has a habit of this, but things such as the Day/Night Cycle WERE very important, and their immediate return and staple to the series are proof of that
>Awful music
Not even gonna' mention the trumpets
>Shit Rivals
Your main rival quits half way through the adventure, and then you get one battle with the cancer kid near the end
>Too much water
Perhaps a remake would fix this. The water routes in Kalos are gorgeous. The problem with Hoenn is that it all looks the same on the GBA, and the tiny Poke'Dex mean that you were going to have a LOT of Tentacool encounters
>Evil Teams were shit.
Gen 1 has a Mob Boss, Gen 2 has remnants of Rocket torturing Pokemon, Gen 4 has religious Extremists, Gen 5 has Peta (Only it turned out to be a massive plot with Ghetsis wanting to be some crazy dictator), and the sequel had him return and Ice-Nuke an entire city and straight up try to kill the player, Gen 6 has the closes thing Pokemon will allow to putting Hitler in their game.
Gen 3? Global Warming activists too stupid to realize that no matter who wins, everybody loses.
Sapphire was the only good one in this regard, because the storm was legitimately dread-inducing, but the overall plot, regardless of which version, was shit
>Anime & Movies
The changes in the anime happened during this period, with voice actor changes, and repetitive storylines intended only to market the new Pokemon. Against Satoshi Tajiri's original plan, Ash is decided to never age, the Gen 3 protagonist instead used as a side character, the romance sub-plot with Misty scrapped.
The movies become uninspired, 6 and 9 having almost identical plotlines. The transition from the Hoenn movies to the glorious Sinnoh Creation Trilogy is a very noticeable improvement in quality.