The men's 5000 metres event at the 2004 World Junior Championships in Athletics was held in Grosseto, Italy, at Stadio Olimpico Carlo Zecchini on 18 July.
| Gold | Augustine Choge | |
| Silver | Bado Worku | |
| Bronze | Tariku Bekele |
18 July
| Rank | Name | Nationality | Time | Notes | |||
|---|---|---|---|---|---|---|---|
| align=left | align=left | | 13:28.93 | ||||
| align=left | align=left | | 13:30.45 | ||||
| align=left | align=left | | 13:30.86 | ||||
| 4 | align=left | align=left |  | 13:32.33 | |||
| 5 | align=left | align=left |  | 13:33.18 | |||
| 6 | align=left | align=left | 13:33.62 | ||||
| 7 | align=left | align=left | | 13:40.77 | |||
| 8 | align=left | align=left |  | 13:50.82 | |||
| 9 | align=left | align=left |  | 13:52.85 | |||
| 10 | align=left | align=left |  | 13:53.15 | |||
| 11 | align=left | align=left |  | 13:54.29 | |||
| 12 | align=left | align=left | | 14:07.55 | |||
| 13 | align=left | align=left | | 14:15.62 | |||
| 14 | align=left | align=left |  | 14:16.89 | |||
| 15 | align=left | align=left | | 14:19.69 | |||
| 16 | align=left | align=left |  | 14:20.51 | |||
| 17 | align=left | align=left |  | 14:25.69 | |||
| 18 | align=left | align=left |  | 14:25.86 | |||
| 19 | align=left | align=left | 14:30.28 | ||||
| 20 | align=left | align=left | 14:58.88 | ||||
| 21 | align=left | align=left |  | 15:03.41 | |||
| align=left | align=left | DNF |
According to an unofficial count, 22 athletes from 17 countries participated in the event.