Yes? Smash should strive to best represent a series and its history.
Pokemon is a hard game to represent correctly in Smash because it basically resets itself every few years and has a huge cast of diverse, iconic characters created and maintained for 20 years.
Games like Pokemon and Fire Emblem that have game rosters like that are best represented with a wide scope of characters that represent all eras of them. It's why I don't really care how many Pokemon or Fire Emblem characters are in Smash because that's just how the series is best represented. They have large rosters in their own series.
Right now everything from 2000-2005 isn't represented at all. That's a fourth of the history of Pokemon.
With clones and the alt character system they can kind of cheat this (Pichu back with Plusle/Minun alts), but it still really does feel like Gold and Silver and Ruby and Sapphire are basically ignored in Smash. Gold and Silver has been running on the same music remix since Melee (that isn't even labeled as being from GS) and RS has 2 remixes. The 1st, 4th, 5th and 6th gens have way more music each.
The 3rd gen is especially hit hard by representation in Smash, never having a character and coming at a really awkward time between Melee and Brawl, so it never really got a fair shake in Smash. The 5th Gen might not get a character, but it gets tons of music, lots of Pokeball Pokemon and an entire stage. The second gen gets an unlabeled remix and third gen gets some old remixes and a cut character in the files of Brawl. 2nd and 3rd gen are the only two gens that have never have a stage in Smash Bros, either.