He is also the son of Abdul Hadi Awang, the President of PAS and Member of Parliament (MP) for Marang.

His father is the seventh and longest-serving PAS President and Marang MP, Tan Sri Dato' Seri Haji Abdul Hadi Awang and his mother is Puan Sri To' Puan Seri Hajah Zainab Awang Ngah.

He obtained his primary education in the Rusila National School in Terengganu and is a graduate of Iman University, Yemen in which he is majoring a bachelor's degree in Islamic and Shariah Studies.

In addition, he also graduated with a master's degree in Islamic Studies from the University of Portsmouth, United Kingdom.

Muhammad Khalil won the party's Youth chief position without contesting at the PAS Annual Mansion in Kedah.