The present paper describes the development of a novel monitoring system (e-FlyWatch system) for managing and controlling the population of two of the world’s most destructive fruit pests, namely the olive fruit fly (Bactrocera oleae, Rossi - formerly Dacus oleae) and the Mediterranean fruit fly (Ceratitis capitata, also called medfly). The novel monitoring system consists of a) novel automated traps with optical and motion detection modules for capturing the flies, b) local stations including a GSM/GPRS module, sensors, flash memory, battery, antenna etc. and c) a central station that collects, stores and publishes the results (i.e. insect population in each field, sensor data, possible error/alarm data) via a web-based management software.The centralised data collection system provides also analysis and prediction models, end-user warning modules and historical analysis of infested areas. The e-FlyWatch system enables the SMEs-producers in the Fruit, Vegetable and Olive sectors to improve their production reduce the amount of insecticides/pesticides used and consequently the labour cost for spraying activities, and the labour cost for traps inspection.