Manzur was arrested in 1999 along with KM Obaidur Rahman, and Shah Moazzem Hossain in the jail killing case in 1999 by the Bangladesh Awami League government. Their arrests were protested by 109 Members of Parliament of Bangladesh Nationalist Party. The jail killing refers to the killing of four national leaders in jail following the 15 August 1975 Bangladesh coup d'état and Assassination of Sheikh Mujibur Rahman. The court cleared them of the charges in 2004 when Bangladesh Nationalist Party was in power.