The indictment isn't the final wrapping of the investigation, just another stage.
The Deputy AG when questioned about the clause you're referring to would only state that this indictment makes no accusations of the sort and refused to answer questions outside of the scope of this particular indictment.
As you know, other indictments have preceded this one. Others may be to follow.
I wouldn't be quick to sum it all up based on two such words. Muller's previous work on large cases has gone on in stages, increasing in severity of charges and prominence of subject.