Chitosan is a natural elicitor, used for stimulating plant growth and inducing plant defense. However, due to difficulty in monitoring root growth and activity, the effects of chitosan treatment on plant root systems have been less studied as compared to plant shoot parts that include leaves, seeds, and fruits. This results in an indefinite outcome of the benefits of chitosan on plant roots. Therefore, this review aims to evaluate the effects of chitosan treatment on root growth and defense responses based on current evidence. Interestingly, many studies have demonstrated that chitosan can induce plant root defense systems, yet conversely inhibiting root growth. The effects were most clearly observed from studies using liquid or solid media as substrates, while the results from the studies using soil were inconclusive and require additional investigation to observe the effects of environmental factors. In addition, root chitosan treatment showed variable effects on shoot growth, where low chitosan concentrations tend to promote shoot growth, but high chitosan concentrations may affect shoot development. Additionally, this review discusses the potential methods of chitosan application onto plant roots. Water insolubility of chitosan is likely a major issue for root treatment. Chitosan can be dissolved in acids, but this could induce acidity stress in plant roots. Modified versions of chitosan, such as chitosan nanoparticles, carboxylated chitosan, and graft chitosan copolymers have been developed to improve solubility and functionality. Chitosan nanoparticles can also be used to encapsulate other biocontrol agents to augment biological effects on plant defense. In conclusion, root chitosan treatment could help to promote plant defense and prevent root infections, abating the uses of chemical fungicides in agriculture. However, further research is required to monitor the impact of root chitosan treatment on long-term plant growth in order to gain multifaceted information to maximize the effectiveness of root chitosan application.