For formal religious education, he moved to Peshawar in the early 1940 and stayed there for many years, gaining knowledge of Tafseer, Hadith, Usul al-fiqa, Aqida and Tajwid.

[6] During his stay at Archi, Akhundzada Saif ur Rahman Mubarak, who had developed a special interest in Sufism and had resorted to private study for a conceptual understanding of the subject, met Naqshbandi sheikh and Sufi scholar Shah Rasul Thaqalayni;[7] he requested Bay'ah.

[6] Shah Rasul Thaqalayni being an old man had instructed his Salikeen (disciples) to remain in the company of his favorite murid, Maulana Muhammad Hashim Samangani, after his departure.

[6] Maulana Hashim Samangani, in 1387 A.H., fell ill and called for Akhundzada Saif ur Rahman Mubarak, who had been granted limited Khilafat, to share the responsibilities of training the other salikeen.

[6] Maulana Hashim Samangani died in 1391 A.H. Before his death, he had ordered all his disciples to keep the company of Akhundzada Pir Saif ur Rahman Mubarak.

[8] Akhundzada Saif-ur-Rahman Mubarak decided to leave Afghanistan in 1978 prior to the Soviet–Afghan War for his murshid who rested in Pir Sabaq, a small town near Nowshehra, where for three years he provided religious guidance.

[6] In Bara his preaching[5] was opposed by Mufti Munir Shakir, a Deobandi cleric, backed by activists of his armed group, Lashkar-e-Islam, who had earlier been expelled from Kurram Agency by the Political Agency due to his active involvement in sectarian violence[9] and who resorted to violence against Pir Saif ur Rahman Mubarak including initiation of FM-based propaganda[10] attacking and burning property.