The 1906–07 Isthmian League season was the second in the history of the Isthmian League, an English football competition.Ilford won the title. At the end of the season Casuals, Civil Service and Ealing Association resigned from the league.
| Competition: | Isthmian League |
| Season: | 1906–07 |
| Winners: | Ilford |
| Matches: | 30 |
| Total Goals: | 101 |
| Prevseason: | 1905–06 |
| Nextseason: | 1907–08 |