I agree with you partially. The flight attendant case is foolishness. The service of alcohol is part of the job.
Regarding a state official, it is their duty to faithfully execute their duties according to the laws of the US and state. The law changed, so she has to issue the licenses. If she doesn’t agree with the law, and won’t fulfill the requirements of her job, she needs to quit. She doesn’t have the right to do the job on her own terms.
So you are proposing that a religious test be established for occupying an office under one of the several states — to wit, that one may not be an adherent of any religion which firmly believes the purported marriage of persons of the same sex is a moral travesty in which one cannot participate if one is to occupy the offices of county clerk, justice of the peace, judge, or any other office which is empowered to issue marriage licenses. This seems to run afoul of Article VI, paragraph 3 as extended to the states by prevailing 14th Amendment jurisprudence.
That's just it; unless KY passed a law making sodomite marriage legal, the law HASN'T changed. Just because the SC says something is X, doesn't make laws change. It just brings in to question the validity of said laws. Ultimately, this is a state sovereignty issue.
The law only states that sodomite marriage is legal - it does not say that anyone is compelled to issue a certificate or perform the ceremony.
How do you feel about smokers? Tobacco is a legal product and smoking is a legal activity. But smokers can't buy them everywhere nor smoke them everywhere.
If the law changes to say she must supervise the killing of innocents, must she comply?
Yes or no.