I read The Intercept rarely and never saw enough of them to form any kind of take on their “typical” headline-style. 404 Media has been popping off everywhere though—including here-since they launched.
This may sound pre-judgmental, but a headline is an advertisement & marketing for the article. A headline can get someone in that might otherwise have skipped the article, but it can just as easily dissuade people who might otherwise be interested in the subject matter.
For new and under-reported (or otherwise downplayed) stories, I think it's understandable and maybe even good. But when every single story has a breathless, scandalized headline, it gets exhausting fast, and it's hard for me to know what to pay attention to.
I remember last year 404 put out a clickbait-y story about the shitty "covert" websites that the CIA used to communicate with spies they'd recruited in Iran, even though it was old news at that point. If you only read the headline (as many people do...) you'd think it was a startling new development.
If their audience is into it though, good for them.