The 32-year-old, who moved to the Allianz Arena in 2009, has signed a two-year deal with the club.
"Ivica is the absolute professional," said Wolfsburg coach Felix Magath.
"His will, running and passion are exemplary. I am convinced he will lift our team with his qualities."
Meanwhile, Munich have confirmed the signing of Borussia Monchengladbach defender Dante on a three-year contract.