If you want to be an employer, you must play by the rules. You may not dictate your beliefs on to your employees, and that is exactly what they want to do here. It's not fair and it's not right. What if your employer decided they didn't want to cover any medical care at all? There ARE sects that don't believe in medical care. Allowing employers to pick and choose in this way is not fair to their employees. But in the interest of openness, I should say that I have no dog in this fight - I don't reside in the USA.
This is pretty much the core of the issue right here I think. These companies think that the corporation or upper management have the right to use their position to trump their employees' decision making abilities. Just because the guy who runs the business is a hardcore fundamentalist doesn't mean that his employees are, or have any obligation to live their lives as such. You run a business, you provide healthcare, and you keep out of your employees private decisions. Just because you think contraception is a sin doesn't mean your employees lose the right to decide how to use the healthcare that they've earned.You may not dictate your beliefs on to your employees, and that is exactly what they want to do here. It's not fair and it's not right.