It's not.
It's saying that if a person's goal is to lose weight, then adjusting to a good diet is far more important than (a reasonable amount of) exercise.
The article does not claim that exercise is harmful. In fact, it explicitly states that there are very many health reasons why exercise is important, and that exercise+diet is still better than diet alone.
It also goes into the culture surrounding exercise, and how it tends to be misleading. The education in popular culture around exercising presents it as a magic pill, as being a major driving force behind weight loss. You see this on magazine covers and on tv, "belly fat exercises", "toning exercises", all sorts of exercises that serve to reinforce the idea that weight is primarily a result of physical activity rather than (for most people) food consumption.
Ultimately though, I think the studies referenced back up the conclusion pretty well: weight loss effectiveness goes diet+exercise > diet > exercise, given standard amounts of each.