Bad take. For one, any time you try to evaluate "the media" as a single entity, you've already failed. Secondly, the first example of "not really lying" is most definitely a deliberate lie.
The entire point of the article is to damn with faint praise. The NYT is no worse than infowars. Both may mislead and omit extremely relevant information but actual lies, no. It’s a knock on the NYT and by extension the entire news media journalism complex.