The effect of natural penicillin synthesized in agro-wastes media containing sugar cane pulp was studied. Natural penicillin produced by P. chrysogenum (PCL 501) in media substituted with sugar cane pulp was measured after seven days using HPLC analytical method. HPLC analysis of the crude extract, partially purified extract and reference drug revealed the presence of 2 pronounced peaks in the crude extracts, one in the partially purified and one in the reference drug. The retention time of the suspected secondary metabolite in the partially purified extract is similar with that of the reference drug. Penicillin eluted at approximately 2.35 minutes. Toxicity study carried out on mice with the culture extract of P. Chrysogenum extract was found to be relatively safe at a dose of 1500 mg/kg body weight of the mouse. In vivo sub-acute toxicity studies on biochemical changes in chemical analytes involved in liver function show that there was no significant difference (p>0.05) observed in the bilirubin level, liver enzymes activities and albumin fraction of the extract, reference drug and control group seven days after the administration of the extract. Similarly, there was no significant difference (p>0.05) observed in the activities of catalase (CAT), superoxide dismutase (SOD), reduced glutathione (GSH) and malonyldialdehyde (MDA) levels. The result of kidney function showed a significant increase (p<0.05) in sodium, urea and creatinine levels in the group administered with reference drug compared to the control group, there was no significant difference (p>0.05) in groups where the extract was administered. There were no significant changes Blessing M. in the PCV level, WBC differentials and total WBC count. However, there was a significant decrease (p<0.05) in Platelets count in rats administered with the extract and reference drug compared to the control. Therefore, natural penicillin synthesized in agro-wastes media containing sugar cane pulp may be safe for therapeutic use.