| Lane/Order | BIB | ATHLETE | Seeding Time | Note | |
|---|---|---|---|---|---|
| 1 | 538 | LONE ATHLETIC | WAN KHAIRUL IMAN BIN W ROMELI | 52.970 | q |
| 2 | 460 | TITAN ATHLETICS | MUHAMMAD FAKHRIY FASYEEN BIN ABDULLAH | 52.963 | q |
| 3 | 147 | KELAB OLAHRAGA SETIAWANGSA | MUHAMMAD IDDIN MUBIN BIN ROZMI | 52.11 | Q |
| 4 | 117 | MSN SELANGOR | muhammad azwar danish bin mohd hambali | 50.19 | Q |
| 5 | 542 | MSN PAHANG | SRI MURUGAN A/L SUNDRAMOORTY | 51.43 | Q |
| 6 | 227 | RAFFLES INSTITUTION | HENRY ZHAO SHUHENG | 51.84 | Q |
| 7 | 427 | WIJUARA | MUHAMMAD HAZIM SAKRI | 52.08 | Q |
| 8 | 139 | KELAB OLAHRAGA SETIAWANGSA | EASSON WEIDE KOH | 52.58 | Q |