| 1st | 62T | Schlesser / Jabouille / Cudini | Sauber-Mercedes C9/88 | Team Sauber Mercedes | 3:15.0400 | 249.8260 |
| 2nd | 37T | Lees / Watson / Dumfries | Toyota 89C-V | Toyota Team Tom's | 3:15.5100 | |
| 3rd | 61 | Baldi / Brancatelli / Acheson | Sauber-Mercedes C9/88 | Team Sauber Mercedes | 3:15.6700 | |
| 4th | 1 | Lammers / Tambay / Gilbert-Scott | Jaguar XJR-9 LM | Silk Cut Jaguar | 3:18.3500 | |
| 5th | 3 | Jones / Daly / Kline | Jaguar XJR-9 LM | Silk Cut Jaguar | 3:19.4800 | |
| 6th | 9 | Stuck / Wollek | Porsche 962 C | Joest Racing | 3:19.8000 | |
| 7th | 4 | Ferté / Salazar / Ferté | Jaguar XJR-9 LM | Silk Cut Jaguar | 3:20.1900 | |
| 8th | 17 | Larrauri / Brun / Pareja | Porsche 962 C | Brun Motorsport | 3:20.2600 | |
| 9th | 2 | Nielsen / Wallace / Cobb | Jaguar XJR-9 LM | Silk Cut Jaguar | 3:20.6500 | |
| 10th | 5 | Nakaya / Grohs / van der Merwe | Porsche 962 C | Brun Motorsport | 3:21.5100 | |
| 11th | 11 | Fouché / Okada / Sekiya | Porsche 962 CK6 | Porsche Kremer Racing | 3:22.7000 | |
| 12th | 63 | Mass / Reuter / Dickens | Sauber-Mercedes C9/88 | Team Sauber Mercedes | 3:22.8600 | |
| 13th | 24 | Bailey / Blundell / Donnelly | Nissan R89C | Nissan Motorsport | 3:24.0900 | |
| 14th | 7 | Jelinski / Raphanel / "Winter" | Porsche 962 C | Joest Racing | 3:24.7700 | |
| 15th | 10 | Takahashi / Giacomelli / Lavaggi | Porsche 962 CK6 | Porsche Kremer Racing | 3:24.9200 | |
| 16th | 25 | Brabham / Robinson / Luyendyk | Nissan R89C | Nissan Motorsport | 3:25.3800 | |
| 17th | 202 | Yorino / Regout / Forbes-Robinson / *Duez / *Hodgetts / *Weidler | Mazda 767B | Mazdaspeed | 3:25.4500 | 237.1670 |
| 18th | 37 | Lees / Dumfries / Watson | Toyota 89C-V | Toyota Team Tom's | 3:25.6000 | |
| 19th | 55 | Schuppan / Elgh / Brabham | Porsche 962 C | Team Schuppan | 3:26.8900 | |
| 20th | 23 | Hasemi / Hoshino / Suzuki | Nissan R89C | Nissan Motorsport | 3:26.9500 | |
| 21st | 6 | Ratzenberger / Lechner / Sandro Sala | Porsche 962 C | Brun Motorsport | 3:27.0700 | |
| 22nd | 51 | Maisonneuve / Dorchy | WM P489 Peugeot | WM Secateva | 3:27.6100 | |
| 23rd | 14 | Bell / Weaver / Needell | Porsche 962 C GTi | Richard Lloyd Racing | 3:27.7500 | |
| 24th | 33 | Hoy / Alesi / Dobson | Porsche 962 C | Team Schuppan | 3:27.7900 | |
| 25th | 15 | Andskar / Hobbs / Hill | Porsche 962 C GTi | Richard Lloyd Racing | 3:27.9700 | |
| 26th | 36 | Ogawa / Barilla / Cheever | Toyota 89C-V | Toyota Team Tom's | 3:28.3200 | |
| 27th | 38 | Hoshino / Artzet / Suzuki | Toyota 88C | Toyota Team Tom's | 3:28.6400 | |
| 28th | 27 | Konrad / Seher / Vilarino | Porsche 962 C | Brun Motorsport | 3:29.4100 | |
| 29th | 16 | Schäfer / Huysman / Lacaud | Porsche 962 C | Brun Motorsport | 3:29.9000 | |
| 30th | 201 | Dieudonné / Kennedy / Hodgetts | Mazda 767B | Mazdaspeed | 3:31.3800 | 220.1010 |
| 31st | 13 | Fabre / Bousquet / Yoneyama | Cougar C22LM Porsche | Courage Competition | 3:31.4900 | |
| 32nd | 72 | Yver / Belmondo / Lässig | Porsche 962 C | Obermaier Racing/Primagaz | 3:32.0000 | |
| 33rd | 21 | Bellm / St. James / Spice / *Taylor | Spice SE89C Ford | Spice Engineering | 3:32.5400 | |
| 34th | 18 | Los / Redman / Roe | Aston Martin AMR1 | Aston Martin | 3:34.0800 | |
| 35th | 8 | Pescarolo / Ricci / Ballot-Léna | Porsche 962 C | Joest Racing | 3:35.4200 | |
| 36th | 203 | Terada / Weidler / Duez | Mazda 767 | Mazdaspeed | 3:36.6900 | 224.8650 |
| 37th | 34 | Alméras / Alméras / Ianetta | Porsche 962 C | Equipe Alméras Frères | 3:36.9100 | |
| 38th | 22 | Taylor / Thyrring / Harvey | Spice SE89C Ford | Spice Engineering | 3:38.4700 | |
| 39th | 104 | Grand / Pochauvin / Roy | Spice SE89C Ford | Graff Racing | 3:38.7000 | |
| 40th | 12 | de Dryver / Gonin / Santal | Cougar C22LM Porsche | Courage Competition | 3:38.7400 | |
| 41st | 32 | Wada / Morimoto / Olofsson | Cougar Nissan R88V | Courage Competition | 3:39.9100 | |
| 42nd | 19 | Sears / Leslie / Mallock | Aston Martin AMR1 | Aston Martin | 3:40.1100 | |
| 43rd | 101 | Taverna / Adams / Velez | Spice SE89C Ford | Chamberlain Engineering | 3:41.0400 | |
| 44th | 151 | Lombardi / Sotty / Magnani | Spice SE86C Ford | Pierre-Alain Lombardi | 3:41.9400 | |
| 45th | 20 | Lee-Davey / Dodd-Noble / Iketani | Porsche 962 C | Team Davey | 3:42.3100 | |
| 46th | 52 | Pessiot / Raulet / Gache | WM P489 Peugeot | WM Secateva | 3:44.0000 | |
| 47th | 103 | Thuner / de Thoisy / Touroul | Spice SE88C Ford | France Prototeam | 3:44.4400 | |
| 48th | 102 | Hotchkis, Jr. / Hotchkis / Jones | Spice SE86C Hart | Chamberlain Engineering | 3:44.9900 | |
| 49th | 171 | Stirling / Hyett / Shead | Spice SE88C Ford | Team Mako | 3:45.4500 | |
| 50th | 113 | Andruet / Farjon / Kasuya | Cougar C20LM Porsche | Courage Competition | 3:45.8600 | |
| 51st | 108 | Wood / de Henning / Clements | Spice SE87C Ford | GP Motorsport | 3:46.2300 | |
| 52nd | 107 | Cohen-Olivar / Sheldon / Donovan | Tiga GC289 Ford | Tiga Race Team | 3:47.0300 | |
| 53rd | 106 | Sebastiani / Veninata / Smith | Tiga GC288/9 Ford | Porto Kaleo Team | 3:48.2700 | |
| 54th | 175 | Bristow / Harrower / Pool | ADA 02B Ford | ADA Engineering | 3:48.8000 | |
| 55th | 126 | Messaoudi / Rousselot / Lecerf | Argo JM19C Ford | France Prototeam | 3:50.3700 | |
| 56th | 105 | Justice / del Bello / Ferrarin | Tiga GC289 Ford | Porto Kaleo/Noel del Bello | 3:50.8200 | |
| 57th | 62 | Jabouille / Schlesser / Cudini | Sauber-Mercedes C9/88 | Team Sauber Mercedes | 3:52.9600 | |
| 58th | 177 | Serpaggi / Hervalet / Descartes | ALD C289 Ford | Automobiles Louis Descartes | 3:55.3600 | |
| 59th | 178 | Bonnet / Tremblay / Cuynet | ALD 05 BMW | Didier Bonnet | 3:58.4900 | |
| 60th | 29 | Coppelli / Scapini / *Franzmaier | Lancia LC2/89 | Mussato Action Car | 3:59.4600 | |
| 61st | 176 | Serfaty / Boulay / *Batmalle | ALD 04 BMW | Louis Descartes | 4:03.8400 | |
| 62nd | 179 | Colin / Cardon / *Bey-Rozet | ALD 06 BMW | Didier Bonnet | 4:25.3500 | |