Deoxys-D outclasses Gardevoir, Cresselia and Uxie.
Heracross outclasses Hitmonchan/lee, Medicham and Primeape.
Heatran outclasses Entei, Typhlosion and non-DW Shanderaa.
Are these Pokemon broken?
If a Pokemon outclasses other Pokemon, it simply means it's better.
He doesn't mean that they're broken.
His whole argument is that, if a pokemon outclasses multiple other pokemon that would be OU otherwise, then, that pokemon is centralizing the metagame more than if the outclassed pokemon would in the absense of the superior pokemon.
However, this would not mean that all non NUs are centralizing. If pokemon W outclasses X, Y, and Z, but if W was removed and X then outclassed Y and Z, W wouldn't directly be centralizing. On the other hand, if W outclasses X, Y, and Z, but X, Y, and Z themselves each had a niche that could only be performed by themselves and W, then by removing W, we now have 3 different pokemon playing the roles that a single pokemon did, thus decentralizing the metagame.
Remember that things aren't banned directly because they are broken; they're banned because they overcentralize. Obviously, in a competitive community, broken things DO get overused and overcentralize, but that doesn't mean that non-broken pokes can't overcentralize either.