In his professional life, he chose the teaching profession. His teaching career began at the college level. Initially, he joined
Prafulla Chandra (P.C.) College in
Bagerhat as a lecturer. Later, he served as the principal of Nilphamari College, Chuadanga College, and
Rangpur College. In 1970, he joined the Department of Political Science at the
University of Dhaka as a senior lecturer. Ahamed served two terms as the pro-vice chancellor before becoming the vice chancellor of Dhaka University in 1992. He retired in 1996. He became the vice-chancellor of the
University of Development Alternative in 2002. He also worked with the
Asiatic Society of Bangladesh. Ahamed was awarded the
Ekushey Padak in 1992 for his contribution to education. Political scientist Mubashar Hasan described Emajuddin as a supporter of President
Ziaur Rahman. According to Hasan, Emajuddin criticized the
Awami League's
Bengali nationalism for excluding non-Bengali residents of Bangladesh, and believed the
Bangladesh Nationalist Party intentionally crafted their
Bangladeshi nationalism to include all people living in Bangladesh. == Personal life ==