PURPOSE: A method for cooking functional bone-removed fish hot chowder is provided, thereby easily eating the fish hot chowder without removing the fish bone, and improving the human health. CONSTITUTION: A method for cooking the functional bone-removed fish hot chowder comprises the steps of: removing bone, head, fin and internal organs from a fresh fish to obtain fish meat; extracting the by-products of the fish to obtain the fish meat stock; extracting the functional materials including Houttuyniae Herba, Acanthopanacis Cortex and green tea to prepare the functional material extract; mixing the fish meat stock with the functional material extract; adding spices into the mixture thereof; adding seasoned salt into the mixture; adding the fish meat, hot pepper powder, garlic and parsley into the mixture; boiling the mixture at 200 deg. C for 30 minutes; and adding other spices into the mixture.