Of course, in the case of Gaia, the infection had gone perfectly, if not for the native species developing Paths that allowed them to fight back and eventually exterminate the virus. She was still largely 'pure,' and only the Panama Continent part of her was infected with esoteric matter, which Rui had neutralized and turned completely benign thanks to his antithesis cells spread across her body.
In the case of the Gargantia Hive, however, it appeared that the planet had been fully infected, but the damage done to the seed, through transit across the cosmos, perhaps, had caused no alien virus mind to develop; simply, the planet became more sentient and gained control over the powerful esoteric matter within its body.
Eventually, the planet gained the ability to reproduce. To gain the ability to implant its seed into other planets, terraforming them into its structure.
It broadly represented its own kind of species.
