Pneumocystis jiroveci pneumonia is frequently diagnosed in immunocompromised patients but it has rarely been reported in immunocompetent individuals without any predisposing factors. Immunocompetent individuals who are exhibited steroids or other immune-suppressive drugs, may become susceptible and may develop clinical Pneumocystis carnini pneumonia (PCP) infection. Cases of co-infection of P. jiroveci and H1N1 influenza in patients with human immunodeficiency virus (HIV) infection and organ transplant recepients have been reported. However, case reports of P. jiroveci and H1N1 influenza co-infection are rare in immunocompetent individuals. We report a case of a young immune-competent man diagnosed with H1N1 influenza and P. jiroveci pneumonia which posed significant diagnostic and management dilemma.