Not all your rights but if your beliefs are in direct violation of federal law, like Rastafarians smoking marijuana, you can't just claim to be immune to the law because of your religion. Her job is to give out licenses to couples who are eligible for marriage. Gay and straight couples now fit that criteria now. If she denies a license for an eligible couple, she can be laid off as she is not doing the job she was appointed. Because she is a government worker she has to uphold the laws related to her work. Otherwise what she does is technically unlawful. Freedom of religion protects you from not being allowed to worship or announce your faith, It does not allow you to deny others unlawfully because your religions morals are against it. Nobody is stopping her from practicing her religion. If anything she is by working for an agency that upholds things against her morals. She should have issue with the government not the people wanting a legal marriage license.