TheMen's 3000 metres event at the2006 IAAF World Indoor Championships was held on March 10–12.
| Gold | Silver | Bronze |
Kenenisa Bekele Ethiopia | Saif Saaeed Shaheen Qatar | Eliud Kipchoge Kenya |
First 4 of each heat (Q) and the next 4 fastest (q) qualified for the final.
| Rank | Heat | Name | Nationality | Time | Notes |
|---|---|---|---|---|---|
| 1 | 1 | Eliud Kipchoge | Kenya | 7:52.57 | Q |
| 2 | 1 | Tariku Bekele | Ethiopia | 7:52.58 | Q |
| 3 | 1 | Saif Saaeed Shaheen | Qatar | 7:52.85 | Q |
| 4 | 1 | Alistair Cragg |  Ireland | 7:53.74 | Q, SB |
| 5 | 1 | Günther Weidlinger |  Austria | 7:53.83 | q |
| 6 | 1 | Halil Akkas |  Turkey | 7:54.60 | q |
| 7 | 2 | Kenenisa Bekele | Ethiopia | 7:54.85 | Q |
| 8 | 1 | Tareq Mubarak Taher |  Bahrain | 7:55.10 | q |
| 9 | 2 | Shedrack Kibet Korir | Kenya | 7:55.14 | Q |
| 10 | 2 | Moukheld Al-Outaibi |  Saudi Arabia | 7:55.14 | Q |
| 11 | 2 | Adil Kaouch |  Morocco | 7:55.18 | Q |
| 12 | 1 | Pavel Naumov |  Russia | 7:55.28 | q |
| 13 | 2 | Sergey Ivanov | Russia | 7:56.44 | |
| 14 | 2 | César Pérez |  Spain | 7:58.06 | |
| 15 | 2 | Vincent Le Dauphin |  France | 7:58.60 | |
| 16 | 1 | Jonathon Riley |  United States | 7:59.30 | |
| 17 | 2 | Dieudonné Disi |  Rwanda | 8:01.73 | PB |
| 18 | 2 | Aadam Ismaeel Khamis | Bahrain | 8:02.16 | |
| 19 | 1 | Isaac Kiprop |  Uganda | 8:05.00 | NR |
| 20 | 2 | Iaroslav Muşinschi |  Moldova | 8:08.35 | SB |
| 21 | 1 | Francisco Javier Alves | Spain | 8:11.85 | |
| 22 | 2 | Steve Slattery | United States | 8:17.15 | |
| 23 | 1 | Bjørnar Ustad Kristensen |  Norway | 8:21.90 | PB |
| 24 | 2 | Jorge Cabrera |  Paraguay | 8:33.95 | NR |
| Rank | Name | Nationality | Time | Notes |
|---|---|---|---|---|
 | Kenenisa Bekele | Ethiopia | 7:39.32 | |
 | Saif Saaeed Shaheen | Qatar | 7:41.28 | |
 | Eliud Kipchoge | Kenya | 7:42.58 | |
| 4 | Alistair Cragg | Ireland | 7:46.43 | SB |
| 5 | Shedrack Kibet Korir | Kenya | 7:47.11 | |
| 6 | Tariku Bekele | Ethiopia | 7:47.67 | |
| 7 | Adil Kaouch | Morocco | 7:48.01 | |
| 8 | Moukheld Al-Outaibi | Saudi Arabia | 7:52.91 | |
| 9 | Pavel Naumov | Russia | 7:56.24 | |
| 10 | Günther Weidlinger | Austria | 7:57.32 | |
| 11 | Tareq Mubarak Taher | Bahrain | 8:04.99 | |
| 12 | Halil Akkas | Turkey | 8:10.37 |
