You're forgetting a big one.

It's a cognitive stimulant that increases worker productivity.

So not only does the coffee industry have an obvious, direct incentive to promote the benefits and downplay any long term negatives, but EVERY corporate entity and even our government has an indirect incentive to downplay any negatives.

A company or society that hypes up it's young worker population on caffeine will likely out-compete organizations of humans that don't, even if major health problems show up later in life.