Yeah, Enemy in WoD and Enemy in Exalted are two different things.
Enemy in Exalted are beings you have crossed with, who wants your hide and would never stop anything from them taking your life (and no, not even killing them solves the issue, they are unkilable until you buy off the EXP point appropriate to the amount of Enemy dots you have). But the good news is that you are so powerful that they might not even matter at all compared to you.
Enemy in WoD however is a different breed. These beings can't just be killed and be done with. If you kill them, the organization that they are a part of will avenge them and if you kill those organization, another bigger one will retaliate by spending a considerable amount of resources to try and kill you off.
And Exalts aren't as powerful here as they are in the Age of Legends. They are new, wheras these enemies you have made are old and have made their roots on the playing board. If they can't attack you, they'll attack your family, then your friends until you try and mend relations with them.
Killing people off isn't the way WoD does things, and I am sure that it isn't here as well (kill off someone as important as a Mantle bearer, and there will be consequences uponn the world).
Which is why most WoD players tend to not have Enemy more than 2. Because it is still salvageable then. If not, you are at risk of angering an entire faction are older than you and more experienced than you.