In a new crackdown on Jehovah's Witnesses, Argentine federal police raided the Buenos Aires headquarters of the banned sect on Nov. 13, a spokesman for the group's New York headquarters said here.

The spokesman said the police had seized cartons containing 125,000 Bible study books owned by the Watch-tower Bible and Tract Society of Pennsylvania, an agency of the Jehovah's Witnesses.

Jehovah's Witnesses in predominantly Roman Catholic Argentina number about 30,000 out of a total estimated population of 26.4 million.

The Witnesses, together with two smaller Eastern oriented sects - the Divine Light Mission and Hare Khrisna - were banned by the military government in September 1976. Meeting places for Christian worship and Bible study by Jehovah's Witnesses have been closed by law.

Hundreds of children of Jehovah's Witnesses have been expelled from primary and secondary schools and adult Witnesses in the employ of the government at all levels, as well as in public utilities and schools, have been dismissed without pay, church officials said here.

Argentina's military regime has objected to Jehovah's Witnesses on the grounds that it reaches "a doctrine contrary to the armed forces and to the respect that should be paid to the symbols of the nation." The Witnesses refuse, for religious reasons, to take part in flag-saluting ceremonies or to sing national anthems. They also "conscientiously object to compulsory military training on religious grounds."