The IIFA Best Story is chosen by the viewers and the winner is announced at the ceremony.
The winners are listed below:
| Year | Winner | Film |
|---|---|---|
| 2010 | Abhijat Joshi and Vidhu Vinod Chopra | 3 Idiots |
| 2009 | Neeraj Pandey | A Wednesday! |
| 2008 | Jaideep Sahni | Chak De India |
| 2007 | Rajkumar Hirani | Lage Raho Munna Bhai [1] |