There was no state secrets assertion in that case and the court decided it on constitutional grounds (under which the government won) rather than statutory grounds (like here, under which the government lost).

Davis: there's no fourth amendment obstacle to the government getting cellphone location data (of particular people)

Clapper: the government's interpretation of part of the Patriot Act's supposedly allowing it to easily get everyone's phone calling records is mistaken

I guess the fact that Davis undermines our privacy rights and Clapper protects them might seem incongruous if you expect a nationwide trend of all Federal courts either protecting or failing to protect privacy. But these were two different courts in different parts of the country applying different legal theories to different legal questions, not just something like "is privacy good?" or "is government surveillance out of control/sketchy/terrifying?".