There were no Werewolves in Cyrodiil because the Vampires there wouldn’t permit them in the province in which they've weeded out the competition. They have organized their force to do so, and rookie vampires who wouldn't join would be rid of. A direct quote from the book Manifesto Cyrodiil Vampyrum, "...we suffer no savage rivals within our boundries..." I think the book Immortal Blood states it also, whilst covering the various vampiric clans. Werewolves should most definitely be in Skyrim, however, as they stick to the Northern, frigid areas anyway. Remember, they were in Solstheim, RIGHT of the coast of the Nords' home province.
Imagine going toe-to-toe with a Frost Troll as a werewolf...... *faints from awesome*
The Cyrodilic vampires do not permit other vampires instead of hating on werewolves. The quote clearly meant other vampires from different clans.
"Know first that we are
no simple tribe of savages, tearing throats with the orgiastic abandon of our scattered, tribal brethren."
"
On Our Rivals: "
Most barbaric tribes think themselves powerful by the gift of Bals blood alone, and squander the gift. There are those, however,who show signs of enlightenments, and earn our attention - those such as Glenmoril Wyrd, who live within the walls of Breton cities, or the Whet-Fang sodality of Black Marsh, who use magicka to keep captives catatonic and harvest from them the red nectar. These foes may one day threaten to impugn our sovereignty within the boundries of Cyrodiil, thus compelling our vigilance. Should and enroach upon our dominion, our wrath must be swift and total."
They could care less about werewolves because...werewolves are werewolves. The cyrodilic vampires dislike other vampire clans because they believe they squander the gift of vampirism. They also believe themselves to be the top vampires because they can walk in the sun when they feed, they can manipulate humans and walk among them and live "life" masquerading as normal people. Other vampires can't do that. Werewolves wouldn't be a threat for vampires because their nature is to be a werewolf twice every month while vampires need to feed daily. They aren't considered a threat to reveal the Order.
Vampires bring in vampire hunters, who go around snooping for vampires.