The Chief Judicial Magistrate Narender Kumar sent Roki to judicial custody up till April 7, in connection with six riot cases including a gangrape case.
Police yesterday arrested Roki from Phugana village, following which irritated villagers resorted to stone pelting and gheraoed the police station.
According to prosecution, Roki who was among 22 people issued non-bailable warrant for their alleged involvement in five incidents of gang-rape during Muzaffarnagar riots.
Another accused, Vedpal, was arrested on January 24 from the same village, they said.