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Anwar was appointed as an adviser on Students and Labour in Zulfikar Ali Bhutto's government (1974–1977). He escaped to Afghanistan after Bhutto was toppled by a right-wing military coup led by Muhammad Zia-ul-Haq.
In Kabul, Anwar joined Bhutto's elder son, Murtaza Bhutto, and formed Al-Zulfiqar, a leftist insurgency committed to toppling the Zia dictatorship. Raja Anwar had a falling with Murtaza over the latter's controversial terror tactics in 1980 and wanted to return to Pakistan and help Murtaza's sister, Benazir Bhutto's political struggle against Zia. Anwar was imprisoned in a Kabul jail, the Pul-e-Charkhi, but was released in 1985 after Murtaza shifted his operations to Syria.
He came to attention for his book Jhootay Roop Ke Darshan, which is based on his love letters to his secret girlfriend KANWAL(The daughter of a high rank retired army officer), and her replies, during their tenure at Punjab University from 1970 to 1972. He has also worked as chairman Punjab education foundation for two terms of three years each. Nowadays, he is settled in UK along-with his family.
As a book writer
Raja Anwar has written a book about the Mir Murtaza Bhutto and Al-Zulifqar organization, titled Terrorist Prince. This book contains real inside stories of Murtaza and his terrorism.
- "Second opinion: Ends of violence and violent ends --Khaled Ahmed's Urdu Press Review". Daily Times. Pakistan. 14 November 2003. Retrieved 12 December 2010.
- "The state criminalised student politics" (Raja Anwar interview)