A general view on the sanitary status of citrus in Apulia is given based on testing of 1750 plants from commercial groves and nurseries. Early varieties of clementine (Common and local ecotypes) and sweet orange (Navelina) are the most important ones in the region but they are highly infected by virus and virus-like diseases. Cachexia and exocortis are the most widespread diseases followed by concave gum, psorosis complex and cristacortis. Citrus infectious variegation and impetratura are rarely detected. No evidence of quarantine pests has been reported with the exception of CTV, detected in an ornamental citrus and in a Chinese lemon.