The limitation of intervention in historical buildings is one of the basic challenges for choosing a strengthening method. Base isolation is one of the best methods which can satisfy such limitations. Although there is a probability to reduce base shear and have negligible drift by base isolating, but it is very important to make sure that the integrity of superstructure reliably stands against the induced acceleration. Lack of integrity leads to local failure mechanisms rather than global failure mechanisms in masonry buildings. For this reason, simplified kinematic limit analysis has been selected as a method in earthquake safety assessment. This paper presents an investigation about the capabilities of simplified kinematic limit analysis as a complementary method, for the seismic safety evaluation of the superstructure of a base isolated masonry historical construction. This method has been applied on the “Naghareh Khaneh” edifice. The Naghareh Khaneh is a masonry historical building in Iran which was constructed around 400 years ago. The main body of this study focuses on the vulnerability assessment of the superstructure after using isolators on the base and the efficiency of simplified kinematic limit analysis will be discussed which shall be based on the results obtained from the out of plane and in plane behaviour of walls after installing isolators and dampers on the base of the Naghareh Khaneh structure.