Tomato post-harvest fungal rot represents a significant challenge in the agriculture industry, leading to substantial economic losses and reduced quality of produce. This preliminary study investigates the factors contributing to fungal rot in tomatoes following harvest. We conducted a series of experiments to identify the fungal species responsible for the rot and examined environmental conditions, handling practices, and storage methods that may exacerbate the problem. The study involved sampling tomatoes from different stages of the supply chain, analyzing fungal contamination, and assessing the impact of various storage conditions on fungal growth. Our findings indicate that specific fungal species, such as Fusarium and Botrytis, are prevalent in post-harvest tomatoes. Additionally, improper handling and suboptimal storage conditions significantly increase the incidence of fungal rot. These insights highlight critical areas for intervention, including improved handling practices and optimized storage conditions to mitigate fungal contamination. The results of this study provide a foundational understanding of the factors leading to post-harvest fungal rot and suggest practical measures to enhance tomato storage and handling practices.