The men's high jump event at the 2006 World Junior Championships in Athletics was held in Beijing, China, at Chaoyang Sports Centre on 15 and 17 August.
| Gold | Huang Haiqiang | |
| Silver | Niki Palli | |
| Bronze | Bohdan Bondarenko |
17 August
| Rank | Name | Nationality | Result | Notes | |||
|---|---|---|---|---|---|---|---|
| align=left | align=left | | 2.32 | ||||
| align=left | align=left | | 2.29 | ||||
| align=left | align=left | | 2.26 | ||||
| 4 | align=left | align=left |  | 2.23 | |||
| 5 | align=left | align=left | 2.23 | ||||
| 6 | align=left | align=left | 2.19 | ||||
| 7 | align=left | align=left |  | 2.19 | |||
| 8 | align=left | align=left |  | 2.15 | |||
| 9 | align=left | align=left |  | 2.15 | |||
| 9 | align=left | align=left |  | 2.15 | |||
| 11 | align=left | align=left | | 2.10 | |||
| 12 | align=left | align=left | 2.05 |
15 August
| Rank | Name | Nationality | Result | Notes | |||
|---|---|---|---|---|---|---|---|
| 1 | align=left | align=left | | 2.18 | Q | ||
| 2 | align=left | align=left | 2.18 | Q | |||
| 2 | align=left | align=left | | 2.18 | Q | ||
| 4 | align=left | align=left | 2.18 | Q | |||
| 5 | align=left | align=left | | 2.18 | Q | ||
| 5 | align=left | align=left | | 2.18 | Q | ||
| 7 | align=left | align=left | | 2.14 | q | ||
| 8 | align=left | align=left | 2.14 | q | |||
| 9 | align=left | align=left |  | 2.14 | |||
| 10 | align=left | align=left | | 2.14 | |||
| 11 | align=left | align=left |  | 2.14 | |||
| 12 | align=left | align=left | 2.10 | ||||
| 13 | align=left | align=left |  | 2.10 | |||
| 14 | align=left | align=left | 2.10 | ||||
| 15 | align=left | align=left | 2.10 | ||||
| 16 | align=left | align=left |  | 2.10 | |||
| 17 | align=left | align=left |  | 2.05 | |||
| align=left | align=left | | NH |
| Rank | Name | Nationality | Result | Notes | |||
|---|---|---|---|---|---|---|---|
| 1 | align=left | align=left | | 2.18 | Q | ||
| 1 | align=left | align=left | | 2.18 | Q | ||
| 3 | align=left | align=left | | 2.18 | Q | ||
| 4 | align=left | align=left | | 2.18 | Q | ||
| 5 | align=left | align=left |  | 2.14 | |||
| 6 | align=left | align=left |  | 2.10 | |||
| 6 | align=left | align=left |  | 2.10 | |||
| 8 | align=left | align=left |  | 2.10 | |||
| 8 | align=left | align=left |  | 2.10 | |||
| 10 | align=left | align=left | | 2.10 | |||
| 11 | align=left | align=left |  | 2.10 | |||
| 12 | align=left | align=left | 2.05 | ||||
| 13 | align=left | align=left | | 2.05 | |||
| 14 | align=left | align=left |  | 2.05 | |||
| 15 | align=left | align=left |  | 2.05 | |||
| 16 | align=left | align=left | 2.00 | ||||
| 16 | align=left | align=left |  | 2.00 | |||
| 18 | align=left | align=left |  | 1.95 |
According to an unofficial count, 36 athletes from 30 countries participated in the event.