The purpose of the 14th is to protect our individiual rights from violations by ALL levels of government, fed/state/local. It's curious indeed that you can't understand that simple point.
But then again, that's no surprise. Even if one were to apply your erroneous view of the 14th to the Moore case, there would still be no case for government action since the federal (or state as you would have it) government is only proscribed from making laws concerning particular religious organizations.
Keyes says:
"We have already seen that the actual language of the Constitution does not forbid an establishment of religion. Rather, it forbids Congress to legislate on the subject at all, reserving it entirely to the states. No language in the 14th Amendment deals with this power of government." -keyes-