The adsorption of a new antibiotic, daptomycin, on two magnetic ultra-fine wood-based biochars were investigated in detail using batch experiments. The adsorbent materials was prepared by ball milling method, which was characterized by laser particle size analyzer, elemental analyzer, ICP-OES, VSM, BET, TG-DTG, FTIR and SEM. Furthermore, the effects of most important variables in the adsorption process, including solution pH, contact time, initial concentration and temperatures were investigated. The results exhibited that the adsorption of daptomycin was highly pH-dependent, and the capacity decreased with increasing pH. The adsorption process follows pseudo-first order and pseudo-second order models, analysis indicated that their adsorption was dominantly by physisorption. Equilibrium data were fitted well with Freundlich isotherm model, implying a multilayer adsorption. Thermodynamic parameters demonstrated that the adsorption was spontaneous, endothermic and increased randomness process. Mechanism study suggested the boundary layer diffusion was the rate limiting step.