Well the Vampire Hunters are decentralized on purpose. Vampires hunt the Hunters, just as vigorously as the Hunters hunt the Vampires. If there was a central organization that the Hunters belonged too, then the Vampires would have attacked it to destabilize them. Same goes for the Vampires ¬ñ if they had a “Ruling Bloodline” the Hunters would seek out to destroy it. You see a little of that happen in MinDeaD ¬ñ “going for the head” of the enemy. In fact, I’d go as far to say, that this has already happened… hence the reason why both sides operate in a “terrorist cell” format: to make it harder to destroy them as a whole.
The Hunters do everything in their power, to prevent the vampire race from uniting under a single leader, because this would be a VERY bad thing. On the flipside, vampires generally get fearful when Hunters start to converge in a single location.
On another point: vampires also tend to be a bit “individualistic” to begin with ¬ñ they don’t naturally gravitate to the idea of someone leading them. Males tend to not get along too ¬ñ they all have that animalistic “alpha dog” thing. So yea… vampires are divided in the Black Cyc Universe, because it’s in their best interest for survival. However the MinDeaD game touches on a few “what if’s” if you play all the endings (expansion disc included).
As for the nature of vampires: they’re of the supernatural type.
Whatever kind of creatures they are, Gore Screaming Show and Blood-Eleven potentially have the power of a god, but are not actually gods. I believe the consensus drawn, from what little Gore and Eleven have explained about themselves, is that the species are “extradimensional aliens” like the Great Old Ones. Stopping Gore has nothing to do with faith or religion - Shinto priests tried to stop him in the past, and failed miserably - in fact, Black Cyc goes out of their way at times, to prove how “Godless” their world is.