The invention discloses an orthopedic screw disinfecting box with a disinfection indicator lamp and an orthopedic screw disinfecting method. The disinfecting box comprises a box body (1), an electric transparent sliding cover (2), a first screw clamping plate (5) and a second screw clamping plate (6). The first screw clamping plate (5) and the second screw clamping plate (6) are each provided with corresponding screw clamping holes (7), four right-angle fan-shaped elastic limiting pieces (8) are arranged in each screw clamping hole, and an insertion opening (9) is formed at the joint of the vertex angles of every four corresponding limiting pieces. An electric transparent sliding screw storing tank (12) is arranged on one side of the box body (1). A bottom bin (14) is arranged at the bottom of the box body and internally provided with an electric lifting column installing box (15) which is internally provided with an electric lifting column (16). A timer (10), the indicator lamp (11) and an electric lifting column switch (17) are arranged on the electric transparent sliding cover. The disinfecting box is convenient to use, can adapt to placement of orthopedic screws of various different specifications, has disinfecting and timing functions and can ensure the disinfecting quality of the screws.