The gunbattles, including exchanges of grenade and mortar fire, forced more than 100,000 residents nearly 10 percent of the population of the bustling port city to flee their homes to emergency shelters, including Zamboanga's main sports complex. Thousands of houses were destroyed in the fighting.
Police and troops still have to clear areas of the dangerous leftovers of the fighting, including unexploded bombs and possible booby traps, Gazmin said.
The siege began when heavily armed insurgents arrived by boat from outlying islands but were blocked by troops and policemen, who discovered what authorities said was a rebel plan to occupy and hoist their flag at Zamboanga's city hall. The rebels then stormed five coastal communities and took residents hostage and were surrounded by troops.
President Benigno Aquino III, who flew to Zamboanga, ordered an offensive after the rebels refused to surrender and free their hostages.
The rebel faction involved in the fighting dropped its demand for a separate Muslim state and signed an autonomy deal with the government in 1996, but the guerrillas did not lay down their arms and later accused the government of reneging on a promise to develop long-neglected Muslim regions.