This study evaluated the effects of berberine nanoemulsion (BNE) against nephrotoxicity induced by bisphenol A (BPA), a plastic chemical, in rats during the pre-puberty stage. Thirty-six male Wistar rats (23-day-old) were randomly allocated to six groups (n = 6): Group 1 (Control). Group 2 (BPA): BPA (200 mg/kg) and saline. Groups 3 (BNE 5) and 4 (BNE 10): BNE (5 and 10 mg/kg,). Groups 5 (BPA + BNE 5) and 6 (BPA + BNE 10): BPA with BNE (5 and 10 mg/kg). After 30 days, kidney samples were obtained for histopathological and biochemical tests. BPA increased serum urea, uric acid, creatinine (Cr), blood urea nitrogen (BUN), and kidney levels of malondialdehyde (MDA), nitric oxide (NO), interleukin-6 (IL-6), interleukin-1β (IL-1β), and tumor necrosis factor-α (TNF-α) versus controls. BPA decreased estimated glomerular filtration rate (eGFR), reduced glutathione (GSH), and superoxide dismutase (SOD) activity. BNE (10 mg/kg) reversed these changes to near-control levels. Histopathology showed lumen obliteration of renal tubules, dilated vessels, glomerular atrophy, and large capsular space in the BPA group. Less inflammation and improved glomerular architecture were seen in the BPA + BNE10 group. In conclusion, BNE (10 mg/kg) significantly alleviated BPA-induced oxidative stress, inflammation and histopathological changes in the kidney of rats during the pre-puberty stage due to its antioxidant and anti-inflammatory effects. This finding confirms the safety and efficacy of BNE in nephrotoxic model during pre-puberty stage. It can be suggested to investigate this agent in clinical study as a possible therapeutic approach.