The lethal and sublethal toxicity of effluent from three acid mine drainage treatment plants were monitored from August 2009 to April 2010 using Daphnia magna (reference species) and Moina macrocopa (indigenous species). Acute lethal toxicity was observed in Samma effluent due to incomplete neutralization of acid mine drainages by the successive alkalinity producing system (SAPS). Additionally, there was no significant difference in toxicity values (TU) between D. magna and M. macrocopa (p < 0.05). Toxicity identification results of the final effluent collected in January 2010 showed that Al and Zn were key toxicants in addition to acidic pH. Unlike the Samma effluent, both Hwangji and Hamtae effluent had pH values that were near neutrality and showed either no acute toxicity or toxicity values less than 1 TU. However, the feeding rates of D. magna and M. macrocopa were significantly reduced when compared to the control (p < 0.05). These findings suggest that the Hamtae and Hwangji effluent likely have a sublethal effect on aquatic organisms in receiving water bodies.