Gen 2 felt like you were encouraged to have some kanto pokemon on your team, and the johto pokemon didn't really stand out. Honestly Tyranitar was too good for the gen it was in. Most Johto pokemon who actually stand out were either legendaries, new evolutions of kanto, or heracross. Then again many people forget Skarmory was actually gen 2.
Big problem with this was probably the gyms...
Falkner: Pidgeotto? Why not Hoothoot, Noctowl, Togetic, Murkrow, etc etc.
Bugsy: Scyther? Not Heracross? And no Ariados or Ledian, Forretress or Scizor? (Though the later two I imagine they avoided because they didn't want to introduce Steel so early)
Morty: Gengar line, no Misdreavus?
Chuck: Again only G1 Pokemon. Could've used Hitmontop or Heracross.
Combine this with going to Kanto at the end of the game, cross gen evolutions, etc, and you get a generation that feels much more like "Pokemon Red/Blue/Yellow: 2" than "Pokemon Gold/Silver/Crystal" to me.
Given that G4 had a lot of connections to G2, specifically introducing many evolutions for G2 Pokemon, I hope that whenever a G4 remake game comes out it has "Sinnoh Forms" of a lot of G2 Pokemon.