The resilience of Agri-Food Supply Chain (AFSC) due to recent epidemics outbreak (COVID-19, SARS-CoV-2) has not been matching with, globalisation of AFSC, and complicated networking system of AFSC and thus poses huge global sustainable issues. Thus, the aim of this research is the modelling of the sustainable AFSC secure mechanism managed through different emerging application of Internet of Things (IoT) technology (Blockchain, Robotics, Big data analysis and Cloud computing). Competitive Supply Chain Management (SCM) needs cautious incorporation of multi- tiers suppliers, specifically during dealing with globalised sustainability issues. Firms have been advancing towards their multi suppliers for driving social and environments and economical practices. This paper also studies the interrelationship and their cause and effect magnitude among various enablers contributing to IoT based food secure model. The methodology used in the paper is Interpretative Structural Modelling (ISM) for establishing interrelationship among the variables and Fuzzy-Decision-Making Trial and Evaluation Laboratory (F-DEMATEL) to provide the magnitude of the cause‒effect strength of the hierarchical framework. Finally, this paper has limitation of taking only factors related to food security system by considering present natural epidemics of COVID-19. In future, other dimensions of AFSC may be considered based on COVID-19 epidemics effect on AFSC.