| 1 | Mallia Simon | 2002 | MLT Silema ASC | 00'58''65 | 599 |  |  | |
50m 27.01 (27.01) 100m 58.65 (31.64) [58.65] |
| 2 | McCleave Nathan | 2001 | MLT Aquahub | 00'59''16 | 584 | | | |
50m 26.84 (26.84) 100m 59.16 (32.32) [59.16] |
| 3 | Northover Joseph | 1990 | MLT Silema ASC | 00'59''79 | 565 | | | |
50m 27.62 (27.62) 100m 59.79 (32.17) [59.79] |
| 4 | Kitsmarishvili Anton | 2004 | MLT Sirens | 01'00''15 | 555 | | | |
50m 27.65 (27.65) 100m 1:00.15 (32.50) [1:00.15] |
| 5 | Woods Thomas Gabriel | 2004 | MLT Neptunes WSPC | 01'00''32 | 550 | | | |
50m 27.95 (27.95) 100m 1:00.32 (32.37) [1:00.32] |
| 6 | Galea Matthew | 1996 | MLT Silema ASC | 01'01''01 | 532 | | | |
50m 27.64 (27.64) 100m 1:01.01 (33.37) [1:01.01] |
| 7 | Spiteri Rudi | 2002 | MLT Sirens | 01'01''34 | 523 | | | |
50m 27.31 (27.31) 100m 1:01.34 (34.03) [1:01.34] |
| 8 | Wareing Sean James | 2001 | MLT Silema ASC | 01'01''54 | 518 | | | |
50m 28.42 (28.42) 100m 1:01.54 (33.12) [1:01.54] |
| 9 | Ziemann David | 2005 | POL Mlodziezowy Klub Plywacki Gdansk | 01'01''57 | 518 | | | |
50m 27.75 (27.75) 100m 1:01.57 (33.82) [1:01.57] |
| | Montfort Nicolas Filip | 2005 | MLT Sirens | 01'01''57 | 518 | | | |
50m 28.53 (28.53) 100m 1:01.57 (33.04) [1:01.57] |
| 11 | Arapaj Justin | 1999 | GER SSKC Poseidon Aschffenburg | 01'03''45 | 473 | | | |
50m 27.98 (27.98) 100m 1:03.45 (35.47) [1:03.45] |
| 12 | Truchlewski Mateusz | 2005 | POL Mlodziezowy Klub Plywacki Gdansk | 01'04''77 | 445 | | | |
50m 29.31 (29.31) 100m 1:04.77 (35.46) [1:04.77] |
| | Dimech Ayden | 2005 | MLT Silema ASC | 01'04''77 | 445 | | | |
50m 27.07 (27.07) 100m 1:04.77 (37.70) [1:04.77] |
| 14 | Brylowski Tomasz | 2005 | POL Mlodziezowy Klub Plywacki Gdansk | 01'05''40 | 432 | | | |
50m 29.91 (29.91) 100m 1:05.40 (35.49) [1:05.40] |
| 15 | D'Ascari Luca | 2002 | MLT Silema ASC | 01'05''65 | 427 | | | |
50m 29.37 (29.37) 100m 1:05.65 (36.28) [1:05.65] |
| 16 | Azzopardi Neil | 2004 | MLT Aquahub | 01'07''36 | 395 | | | |
50m 30.83 (30.83) 100m 1:07.36 (36.53) [1:07.36] |
| 17 | Vella Luca | 2005 | MLT Aquahub | 01'09''77 | 356 | | | |
50m 31.39 (31.39) 100m 1:09.77 (38.38) [1:09.77] |
| | Mifsud Jake | 2005 | MLT San Giljan Sw Elite | Squalificato | |
