| Point Factors |
| Enemy Alerts | -300 per alert |
| Kills | -200 per kill |
| Prisoner's Rescued | 3500 per hostage |
| Support Helicopters Lost | ? per helicopter |
| Retries | -300 per retry |
|
|
| Ground Zeroes Main Mission |
| Clear Time | (42000) -5 per second |
| Enemy Alerts x 0 | 5250 |
| Kills x 0 | 3500 |
| Retries x 0 | 5250 |
| No Reflex | 5250 |
| Escaped Prisoner Rescued | 3500 |
|
|
| Side Op 1 帰還兵排除 Eliminate the Renegade Threat |
| Clear Time | (36500) -12 per second |
| Enemy Alerts x 0 | 7500 |
| Kills x 0 | 2500 |
| Retries x 0 | 3750 |
| No Reflex | 7500 |
| Both Targets Recovered | 7500 |
|
| Side Op 2 諜報員奪還 Intel Operative Rescue |
| Kills x 0 | 250 |
| Retries x 0 | 375 |
|
| Side Op 3 機密情報回収 Classified Intel Acquisition |
| Clear Time | (43000) -15 per second |
| Enemy Alerts x 0 | 6000 |
| Kills x 0 | 2000 |
| Retries x 0 | 3000 |
| No Reflex | 6000 |
| Classified Intel Retrieval | 3000 |
|
| Side Op 4 対空兵器破壊 Destroy the Anti-Air Emplacements |
| Enemy Alerts x 0 | 8250 |
| Kills x 0 | 2750 |
| Retries x 0 | 4125 |
| No Reflex | 8250 |
| Motherbase Spy Retrieval | 6500 |
|
| Extra Op デジャヴ・ミッション Déjà Vu Mission |
| Clear Time | (49800) -25 per second |
| Enemy Alerts x 0 | 3000 |
| Kills x 0 | 2000 |
| Support Helicopters Lost x 0 | 0 |
| Retries x 0 | 3000 |
| No Reflex | 3000 |
| Scene Recreation | 5000 per scene |
|
|