The 1968–69 season was the 54th in the history of the Isthmian League, an English football competition.
Enfield were champions, winning the league for the second season in a row.
League table
| Season | 1968–69 |
|---|---|
| Champions | Enfield |
| Matches played | 380 |
| Goals scored | 1,216 (3.2 per match) |
← 1967–68 1969–70 → | |
| Pos | Team | Pld | W | D | L | GF | GA | GR | Pts |
|---|---|---|---|---|---|---|---|---|---|
| 1 | Enfield | 38 | 27 | 7 | 4 | 103 | 28 | 3.679 | 61 |
| 2 | Hitchin Town | 38 | 23 | 10 | 5 | 67 | 41 | 1.634 | 56 |
| 3 | Sutton United | 38 | 22 | 9 | 7 | 83 | 29 | 2.862 | 53 |
| 4 | Wycombe Wanderers | 38 | 23 | 6 | 9 | 70 | 37 | 1.892 | 52 |
| 5 | Wealdstone | 38 | 20 | 11 | 7 | 73 | 48 | 1.521 | 51 |
| 6 | Hendon | 38 | 22 | 5 | 11 | 69 | 47 | 1.468 | 49 |
| 7 | St Albans City | 38 | 17 | 13 | 8 | 75 | 44 | 1.705 | 47 |
| 8 | Barking | 38 | 20 | 7 | 11 | 69 | 46 | 1.500 | 47 |
| 9 | Oxford City | 38 | 18 | 8 | 12 | 76 | 64 | 1.188 | 44 |
| 10 | Tooting & Mitcham United | 38 | 16 | 10 | 12 | 68 | 55 | 1.236 | 42 |
| 11 | Leytonstone | 38 | 18 | 4 | 16 | 71 | 53 | 1.340 | 40 |
| 12 | Kingstonian | 38 | 15 | 8 | 15 | 62 | 56 | 1.107 | 38 |
| 13 | Walthamstow Avenue | 38 | 10 | 10 | 18 | 47 | 71 | 0.662 | 30 |
| 14 | Maidstone United | 38 | 10 | 8 | 20 | 47 | 75 | 0.627 | 28 |
| 15 | Clapton | 38 | 10 | 7 | 21 | 52 | 76 | 0.684 | 27 |
| 16 | Woking | 38 | 8 | 7 | 23 | 45 | 77 | 0.584 | 23 |
| 17 | Bromley | 38 | 8 | 7 | 23 | 52 | 95 | 0.547 | 23 |
| 18 | Dulwich Hamlet | 38 | 6 | 9 | 23 | 31 | 77 | 0.403 | 21 |
| 19 | Ilford | 38 | 6 | 8 | 24 | 33 | 77 | 0.429 | 20 |
| 20 | Corinthian-Casuals | 38 | 2 | 4 | 32 | 23 | 120 | 0.192 | 8 |