Agreed, I really wish the Companions were just like the Fighter's Guild, sticking that Werewolf crap onto that guild kind of turned me off from them.
I thought that was cool, but I think they should have had to separate branching questlines once you got to the part where you became a werewolf.
1) where you become a werewolf if you accept
2) if you decline you continue through a separate questline with them where you are normal