This study reports a protocol for micropropagation and evaluate the effects of autotoxicity on regeneration of Indigofera zollingeriana Miq. an important forage plant in Indonesia. The epigeal and cotyledon node explants were obtained from 4 weeks old GA(3) treated seedlings. The explants showed regeneration on a single or two explants only in every petri dish with no regeneration on the rest of explants in a petri dish due to the effects of autotoxicity, if they were pretreated with liquid BAP for 24 hours. Germination was noted on all explants, if they were cultured singly. No autotoxicity was noted on the explants that were pretreated for 14 days on agar solidified MS medium with maximum number of 3.75 and 4.00 shoots per ex plant on epigeal and cotyledon nodes using 5 mg/L BAP pretreatment. The shoots were not rooted separately as they rooted in the regeneration medium. These were transferred to 1/2 L plastic pots containing leaf peat moss for 60 days to acclimatize them.