Thomas Daniel Elborne, 28, appeared in Brisbane Magistrates Court this morning after an incident about 9pm last night.
A Police Media spokesman said police were called to the Queensland Maritime Museum after reports from security that a man had climbed a fence into the area.
It is alleged the man attempted to light fires and proceeded to climb the mast of a ship in the dry dock.
Elborne allegedly threatened police before coming down from the mast.
He was charged with three counts of serious assault and one count each of wilful damage, threatening violence, carrying dangerous goods on vehicle, trespassing and unregulated high-risk activities.
He was ordered to appear in court again on July 7.
The HMAS Diamantina is a River-class frigate that served in World War II. Built by Walkers of Maryborough, it was the vessel that accepted the surrender of Japanese forces at Nauru and Ocean islands in 1945.
After the war, it served as an oceanographic ship and discovered the deepest point in the Indian Ocean - now known as the Diamantina Trench.
It was consigned to the dry dock at South Bank in 1980, and is now a popular tourist attraction.