Whatever fans expected from the first meeting between the stars of The X-Files and Millennium, it was probably more friendly than what we get. When Frank Black (Henriksen) first appears in the episode, he’s checked himself into a psychiatric hospital in an attempt to win back custody of his daughter.
Afraid that getting involved in the case will hurt his chances of seeing his daughter, Black refuses to even look at the files Mulder and Scully bring him. By the end of their first meeting, Mulder expresses as much disrespect for Black as he can muster.
Of course, any ire between Black and Mulder is gone by the end of The X-Files episode after Black risks everything to not only put a stop to the end of the world, but to save Mulder.