| Stage | Agent | Special Agent | Perfect Agent |
| dataDyne Central - Defection | 0:45 | 20:00 | 20:00 |
| dataDyne Research - Investigation | 2:06 | 20:00 | 20:00 |
| dataDyne Central - Extraction | 1:25 | 20:00 | 20:00 |
| Carrington Villa - Hostage One | 1:34 | 20:00 | 20:00 |
| Chicago - Stealth | 0:26 | 20:00 | 20:00 |
| G5 Building - Reconnaissance | 1:17 | 20:00 | 20:00 |
| Area 51 - Infiltration | 1:48 | 20:00 | 20:00 |
| Area 51 - Rescue | 2:11 | 20:00 | 20:00 |
| Area 51 - Escape | 3:39 | 20:00 | 20:00 |
| Air Base - Espionage | 2:31 | 20:00 | 20:00 |
| Air Force One - Antiterrorism | 1:36 | 20:00 | 20:00 |
| Crash Site - Confrontation | 2:46 | 20:00 | 20:00 |
| Pelagic II - Exploration | 1:36 | 20:00 | 20:00 |
| Deep Sea - Nullify Threat | 4:50 | 20:00 | 20:00 |
| Carrington Institute - Defense | 1:23 | 20:00 | 20:00 |
| Attack Ship - Covert Assault | 3:25 | 20:00 | 20:00 |
| Skedar Ruins - Battle Shrine | 3:18 | 20:00 | 20:00 |
| Mr. Blonde's Revenge | 20:00 | 20:00 | 20:00 |
| Maian SOS | 20:00 | 20:00 | 20:00 |
| WAR! | 20:00 | 20:00 | 20:00 |
| The Duel | 0:00 | 0:00 | 0:00 |
| Total Time | ?? | ?? | ?? |