Mængden af anidulafungin, der passerer blod- hjernebarrieren, er begrænset hos raske rotter, hvorimod det er vist, at anidulafungin kan passere blod- hjernebarrieren og reducere svampemængden i hjernen hos kaniner med dissemineret candidiasis.
Crossing of the blood-brain barrier by anidulafungin was limited in healthy rats; however, in rabbits with disseminated candidiasis, anidulafungin has been shown to cross the blood-brain barrier and reduce fungal burden in the brain.