Belonging to the technical field of nucleic acid diagnosis, the invention particularly relates to a method and a kit for synchronous extraction and synchronous detection of hepatitis and HIV virus by fluorescent complementary probe hybridization. With a magnetic bead as an automation medium, the method includes a technique for specific synchronous capture of HBV, HCV, and HIV-1 nucleic acids through biotin and oligonucleotide modified capture probes and a Taqman probe-based fluorescent complementary probe hybridization technique for real-time synchronous detections. The corresponding kit includes a disinhibition agent, a lysate, a magnetic bead suspension, a washing liquid, an eluent, an internal control, a 2 * Annealing Buffer, fluorescent probes, a positive control, and a negative control. The method and the kit provided in the invention have the characteristics of: no need of PCR reaction, single tube operation, closed detection, high degree of automation, synchronous extraction of various virus nucleic acids, and synchronous real-time detection, high sensitivity, good specificity and high precision, thus being suitable for large-scale blood screening, clinical examination and scientific research units.