Given what the article actually says, it isn't surprising at all. I'd suggest that people read the article past the headline.
The single example they gave of Fauci countering Trump was Trump's talking up hydroxychloroquine, something a lot of people in this forum have also done. Fauci just cautioned that the claim was anecdotal and no clinical trials have been done yet.
That same article says of Trump:
Fauci: "“Well, that’s pretty interesting because to his [Trump’s] credit, even though we disagree on some things, he listens. He goes his own way. He has his own style. But on substantive issues, he does listen to what I say.”
Asked how often he disagreed with the president, Dr Fauci said: “I don’t disagree in the substance. It is expressed in a way that I would not express it, because it could lead to some misunderstanding about what the facts are about a given subject.”