I can’t say for certain what they mean, but while their Trump coverage is solid, many people take issue with the way they are covering the Israel-Palestine conflict.
On another note, while I believe the John Kelly interview should be damning, if you believe it will make any difference you are living in a fantasy world.
The second point was an aside, but the first point was the likely answer to your question. You were talking about the NYT doing a good job reporting on Trump but the person you responded to was almost certainly talking about their less honest, more propagandized reporting. I was offering the example of this that is at the forefront of everyone’s minds at the moment.
Not bickering, by the way, just clarifying.