Jaffrunnisha, a dress designer, is now settled in Malaysia, the sources said.
The wedding was held in a garden at Senkalneerodai near Keezhakarai amid tight security with only relatives of the bride taking part.
The 35-year-old music director was earlier married to Sujanya and Shilpa and had separated.
Yuvan Shankar Raja has scored music for more than 100 films.