The controversial joint statement issued by the Board of Deputies and Muslim Council of Britain at the height of the Gaza conflict has received widespread support from members of the Jewish group.
Deputies at Sunday's Board plenary meeting in central London voted by 124 to 40 in favour of a motion backing the decision of the group's leaders to work with the Muslim organisation.
Board president Vivian Wineman told deputies that he had approved the statement at "an emergency time. We felt we had to do something".
He said a large proportion of antisemitic incidents in July and August had come from within the Muslim community and that it was important to recruit "allies" among British Muslims.
Mr Wineman had been criticised for failing to consult with deputies before issuing the statement, but he told the meeting the Board had liaised with Jewish organisations and the Department for Communities and Local Government before going ahead.
It had been expected that the meeting would see attempts to unseat Mr Wineman in the wake of criticism of his leadership during recent months, but such a move failed to materialise.
Meanwhile in Manchester on Sunday, the Board launched its 2015 general election manifesto to coincide with the opening of the Labour Party conference in the city.
Board's chief executive Gillian Merron described the document as "a step forward for the Jewish community".