(S)-2-Benzylpiperazine dihydrochloride is primarily utilized in research and development within the field of medicinal chemistry. It serves as a key intermediate in the synthesis of various pharmaceutical compounds, particularly those targeting the central nervous system. Its structure is often explored for designing ligands that interact with neurotransmitter receptors, such as serotonin and dopamine receptors, making it valuable in the study of neurological disorders. Additionally, it is used in the development of potential therapeutic agents for conditions like depression, anxiety, and addiction. In laboratory settings, it is also employed as a reference compound for analytical and pharmacological studies.