no it does not. it limits the congress in what they can and cannot pass regarding the freedom of religion and freedom of speech. implementation safeguards the rights of ALL people,thus applies to all people, not only the government.
http://en.wikipedia.org/wiki/First_Amendment : for history, cases, interpretations. Nothing in there suggests that what they did was against the law.
Text of the first ammendent:
"Congress shall make no law respecting an establishment of religion, or prohibiting the free exercise thereof; or abridging the freedom of speech, or of the press; or the right of the people peaceably to assemble, and to petition the Government for a redress of grievances."
And, don't forget the 10th amendment that stipulates essentially "what is not forbidden, is allowed"
"The powers not delegated to the United States by the Constitution, nor prohibited by it to the states, are reserved to the states respectively, or to the people."