“Does this apply to all cases — EWTN, other religious organizations that protested this provision”
Yes for those 4 particular abortion causing drugs, but not over the counter contraceptions. Little Sisters of the Poor and EWTN still have to provide birth control pills for their employees if they want them. And so does Hobby Lobby, but they were already giving employees birth control pills, so go figure.
It is possible that a judge might use this case (in general, the issue of something objectionable being offered) as a reason to allow them NOT to offer contraceptives.
The fact it is a narrow ruling is bad. The SCOTUS should have upheld what HOBBY LOBBY on the Freedom of Religion of the Constitution...