Round 1
| Position | BIB | Name | Team | Echelon | Mark | 
|---|---|---|---|---|---|
| 1 | 1571 | Matias Brites |  ADRAP | SUB-16 | 02:44.28   | 
| 2 | 2470 | Jonas António |  AJS | SUB-16 | 02:52.19   | 
| 3 | 3094 | Domenic Rey |  GDE | SUB-16 | 02:55.05   | 
| 4 | 2388 | David Pinto |  CSM | SUB-16 | 02:58.13 | 
| 5 | 3058 | Bernardo Silva |  GDE | SUB-16 | 03:03.26 | 
| 6 | 1875 | Guilherme Pita |  CFA-M | SUB-16 | 03:07.94 | 
| 7 | 3575 | Mattias Ferreira |  CSM | SUB-16 | 03:11.66 | 
| 8 | 3475 | Martim Andrade |  CFA-M | SUB-16 | 03:21.89 | 
| 9 | 2399 | Tiago Henriques |  AJS | SUB-16 | 03:25.87 | 
| 10 | 2072 | Miguel Brito |  AJS | SUB-16 | 03:26.70 | 
| 11 | 3686 | Tomás Rodrigues |  GDE | SUB-16 | 03:27.15 | 
| 12 | 1447 | João Paulo Figueira |  GDE | SUB-16 | 03:31.02 | 
| 13 | 3408 | Rodrigo Serrão |  CSM | SUB-16 | 03:31.31 | 
| 14 | 2061 | Rodrigo Teixeira |  ADRAP | SUB-16 | 03:34.17 |