Totally missing DP Pokémon (51)
>Kanto/Johto/Hoenn starters
>Kanto/Johto/Hoenn Legendaries + Mythicals
>Tropius, Tangela/Tangrowth
Debatable (6)
>Regigigas (requires Regirock, Regice, Registeel)
>Manaphy + Phione (requires an outside source)
>Darkrai (requires event)
>Shaymin (requires event)
>Arceus (requires event)
Trade evolution (16)
>Alakazam, Golem, Gengar, Machamp
>Politoed, Slowking, Scizor, Kingdra, Porygon2
>Huntail, Gorebyss
>Rhyperior, Electivire, Magmortar, Porygon-Z, Dusknoir
Dual Slot Mode (37)
>Seedot/Nuzleaf/Shiftry, Mawile, Zangoose, Solrock (Ruby)
>Lotad/Lombre/Ludicolo, Sableye, Seviper, Lunatone (Sapphire)
>Caterpie/Metapod/Butterfree, Ekans/Arbok, Growlithe/Arcanine, Elekid/Electabuzz (FireRed)
>Weedle/Kakuna/Beedrill, Sandshrew/Sandslash, Vulpix/Ninetales, Magby/Magmar (LeafGreen)
>Pineco/Forretress, Gligar/Gliscor, Shuckle, Teddiursa/Ursaring (Emerald)
Version exclusives (20)
>Seel/Dewgong vs Slowpoke/Slowbro/Slowking
>Scyther/Scizor vs Pinsir
>Larvitar/Pupitar/Tyranitar vs Bagon/Shelgon/Salamence
>Aron/Lairon/Aggron vs Spheal/Sealeo/Walrein
>Poochyena/Mightyena vs Houndour/Houndoom
>Kecleon vs Stantler
>Murkrow/Honchkrow vs Misdreavus/Mismagius
>Cranidos/Rampardos vs Shieldon/Bastiodon
>Stunky/Skuntank vs Glameow/Purugly
>Dialga vs Palkia
Other (6)
>Two Sinnoh starters you didn't choose
OP, I at least expect you to be at 357/493 if you're playing one game with absolutely no connection to any other thing whatsoever.