Treatment of Chronic Mucocutaneous Candidiasis Antifungal drugs Treatment of endocrine and autoimmune manifestations Usually, the infections of chronic mucocutaneous candidiasis can be controlled with a topical antifungal, If patients have a poor response to topical antifungals, long-term treatment with a systemic antifungal drug (eg, amphotericin B, fluconazole, ketoconazole) may be needed.