>> If Joe works as a waiter for a restaurant for 10 years, and then the restaurant gets a liquor license, can he refuse to take orders for alcoholic beverages or refuse to take drinks with food because his Baptist or Wahabi religious beliefs are against alcohol? <<
It's an issue of reasonable accomodation. In your example, such a restaurant depends on drink sales for its profits, so if she won't sell licquor, she is fundamentally incapable of doing her job at all.
Here's a better example: Tina has been waiting tables at a restaurant for years. The state law is changed making it easy for restaurants to get licquor licenses, so even the restaurant normally caters to families with kids and doesn't serve alcohol, it obtains a licquor license in case someone wants to hold a reception there or something.
Tina says she's a Baptist and cannot sell licquor. I would say that it would be reasonable for the restaurant to simply not schedule her to serve the function room when there is a party there.
Reasonable accomodation might apply if they only sometimes sell alcohol. But if drinks are always on the menu, there would be no reasonable accomodation. Or in the case where no alcohol was served at all, if the waitress gave a lecture on the evils of drink to anyone who asked for a glass of wine, she would be fired. That seems to be a more suitable analogy to the Target case. They didn't even carry the medicine in question. She could have simply stated that. That would not be the same as participating in abortion. If asked where the prescription could be filled, she could have said that she was not familiar with the policies of her company's competitors and she didn't know where it was available.