The Aryavaidya Patasala was started in the year 1917 at Calicut by Late Vaidyaratnam P.S. Varier, the founder of Arya Vaidya Sala and was run by the Arya Vaidya Samajam, a registered society. The Patasala was financed by the Arya Vaidya Sala, Kottakkal.

A four years course leading to the diploma “Arya Vaidyan” was conducted. In 1924, the Patasala was shifted to Kottakkal with a view to give practical training to the students in the Arya Vaidya Sala Charitable Hospital.

In 1972, the College was affiliated to the University of Calicut and the Bachelor of Ayurvedic Medicine (B.A.M) course was started. Later, the B.A.M.S course was introduced with a duration of 4½ years followed by one year internship.

The College also offers five postgraduate courses in Mano Vijnan evum Manas Roga, Agadatantra evum Vidhivaidyaka, Swasthavritta, Dravyagunavijnana and Panchakarma.

From 2010 onwards, admissions in UG and PG courses are conducted under the affiliation of the Kerala University of Health Sciences (KUHS).

The administration of the College is managed by the Kerala Ayurvedic Studies and Research Society (K.A.S.R.S) with representation from the State Government and Arya Vaidya Sala.