Sayyid Alavi married Fatima, daughter of Hasan al-Jifri, in 1183 Hijra. He stayed for a short period in his bride's house but later shifted to a permanent Maliyekkal house near Mamburam Juma Masjid. He had two daughters with his spouse: Sayyida Alawiyya and Sayyida Sharifa, the latter of whom was also known as Kunhi beevi. After Fatima's death, he married the daughter of Sayyid Abu Bakr al-Madani of Kovilkandi Ambarkand of Koyilandy, also named Fatima. He had one son in this relationship, Sayyid Fadl. At the age of 50, he married A'isha from Tanur and had two more daughters, Sayyida Swaliha and Sayyida Fatima. After the death of his third wife, he married Swaliha from Indonesia.
