- Anticlimax Boss: The Final Battle is perhaps too lenient, all things considered. Jacker's progress in rearranging the brain IDs isn't truly reverted when Ghost wanders outside of her brain's radius, and although the sequence continues after getting her body destroyed, there's still plenty of time to return and continue the battle.
- Self-Imposed Challenge: Through the achievement system, at least two alternate ways of playing the game are possible. The first requires the player to not spend a single skill point, while the second one requires the player to select the rightmost perk in each line as soon as possible, all of which make the game significantly harder.
YMMV / Ghost 1.0