The invention relates to a method for breeding Pseudostellaria heterophylla by virus-free tissue culture. The method comprises the following steps of: selecting explants, performing induction culture, detecting viruses, performing enrichment culture, performing rooting culture, propagating virus-free tissue-culture seedlings, acclimating, transplanting, and producing virus-free Pseudostellaria heterophylla stock seeds, first generation seeds and second-generation propagation seeds (production seeds). The method is easy to operate and has a low inoculation contamination rate and a high survival rate. The virus elimination operation is simple, rapid and complete, the propagation coefficient is increased by 10-15 times, and the propagation speed is high. The virus-free tissue-culture seedlings are suitable for industrialized production. The root tubers produced from the virus-free tissue-culture seedlings have resistance, are better in yield and quality than virus-infected seedlings, and can be produced commercially.