The present invention discloses an acupuncture and moxibustion apparatus with multi-frequency microwave comprising a microwave oscillator A, a power amplifier A, circulator A, a power divider A, a microwave radiator A, a microwave oscillator B, a power amplifier B, a circulator B, a power divider B, a microwave radiator B, a controller, a display screen, and a power supply unit. Two medical frequencies in the international microwave band L are used to avoid the interferences between communication and TV. And the solid state modular microwave source is used, which provides a good thermal penetration, heating homogeneity, and safety performance, as well as high efficiency and long service life. Dual effect of acupuncture using metal needle and heating of acupuncture points by moxibustion is provided. The apparatus can be used to treat multiple human diseases.