NO!!!
According to Alias sources, the character Vaughn is being killed off the show.
Personally, I don't want his character written off the show. But, I just remembered what they often say about Alias characters:
No one really dies in Alias.
So it may be a show gimmick. I hope that it is (a show gimmick).
I am presuming that they are killing off the Vaughn character to make way for the 'real' persona of Vaughn (in which he has been keeping a secret). Just a theory (call me 'in denial'). But I am truly hoping that his character will just be presumed to be killed* off to reveal his real identity.