Ayurveda being a science learnt, practiced and taught over generations is a discipline codified through centuries in written documents called manuscripts. Manuscripts on medicine ranges between 20,000–1,00,000 in number. A mere 2% of the available material from manuscripts is in printed form. Several treatment priniciples methods and medical formulations are yet to be discovered from the manuscripts for the present day needs. Therefore, a scientific protocol of research methodology for accessing and exploring this knowledge treasure is of immediate necessity. This article provides an alleyway towards the methodology in Medical Manuscriptology to be adopted by a scholar who intends to take up research in Ayurveda manuscripts.