Shaykh Muhammad began his study under his father, Sayyed Yahya, rahmatullahi alaih, memorising the Glorious Qur'an and acquiring knowledge in many of the Islamic disciplines, including Aqeedah, Fiqh, Hadith and Ihsaan, with ijaazas (license to teach). He particularly specialises in the fields of Hadeeth and Tawheed.

He attended Al-Azhar Sharif University, Faculty of Usool-uddeen, where he studied under many scholars. In addition, he was under the tutelage of many stars of this century who resided in Syria, Madina, Makkah, Tangiers, Fez, Rabat, Egypt, Sudan and Jordan. He sat at the feet of, and was authorized by, many scholars such as Al-Imam Al-Hafeth As-Sayyed Abdullah bin Assidiqq Ghumari, Hafeth Abul Aziz bin Assiddiqq Ghumari, Hafeth Ibrahim bin Assiddiqq Ghumari, and Hafeth Hasan bin Assiddiqq Ghumari, radiaAllah anhum, Shaykh Hasan Qaribullah of Sudan, Shaykh Abdullah Al-Husayni, Shaykh Muhammad Al-Bata'ihi, Shaykh Jamil Ar-Rifaiy, Sayyed Al-Habib Al-Attas of Hadramout and others. Among the Mashayekh he learnt from are Shaykh Abdullah Siraj-Addin Al-Husayny, the Ba'Alawi scholars, Shaykh Abdullah At-Talidi, Shaykh Qaribullah of Sudan, the late Muhaddith Al-Haramayn Sayyed Muhammad Alawi Al-Maliki and many other honorable scholars in Morocco, and Hijaz.