The application, a copy of which is available with PTI, was moved by a lawyer Mohammad Anwar in the court of Chief Judicial Magistrate.
The application will be taken up for hearing on October 28, Anwar said.
The lawyer, in his complaint, alleged that because of the statement by the Congress Vice President at an election rally in Indore, the Muslims of the country are being viewed with suspicion.
Rahul had said he was told by an intelligence official that intelligence agencies of Pakistan had established contact with a group of 10-15 Muslim youngsters, who had lost their kin in the riots.