Director General of Contagious Diseases Nyoman Kandun confirmed that the man had died in hospital in the Jakarta satellite city of Tangerang.
If this recent bird flu death and another death reported last month are confirmed by the World Health Organization (WHO), the man would be listed as Indonesia's 137th H5N1 case and its 112th death.
Health Minister Siti Fadilah Supari earlier in 2007 closed a 24-hour information center on bird flu outbreaks and stopped providing regular updates of the death toll, saying it was unnecessary.
Experts fear that the virus, which is usually spread directly from a bird to a human being, could mutate into a form easily transmissible between people, thus sparking a deadly global pandemic.
At present, the WHO's world H5N1 count stands at 385 positive human cases and 245 deaths.