In 2006 Dunne won his tenth and final county championship winners' medal with Toomevara, this time as captain of the side. He subsequently captured his third Munster club title, however, his side lost in the All-Ireland club semi-final with Dunne being controversially sent off after a straightforward punch to the guts. This event became the spark which Ballyhale Shamrocks needed to ignite their passions and, coupled with the inability of the selectors to see what was happening in front of them, brought about Toomevara's downfall. Following this defeat Dunne decided to retire from club hurling.