[Big Boss] He is the Leader of the Town, and so he may choose who to lynch of the top three candidates. He may also break any ties or choose a dual lynch, but only once.
[I'm no Hero] Once per night, Snake may choose a single player to protect for the night.
[Accelerated Aging] After 4 cycles, Solid Snake will become Old Snake. As a result, he may only protect every other night phase.
[CBox] His mind cannot be read by Mantis.
[Jack the Ripper] Raiden may kill one person of he choice every three phases.
[The Vampire's Rival] He may bypass Vamp's regenerative abilities.
[Reveangence] Raiden will take the roll of protector should Solid/Old Snake die. If his first protection is successful, the attack will be completely deflected to a random wolf.
Hal "Otacon" Emmerich-
[Surveillance] Once per Night Phase, he may learn the faction of a target.
[Spy vs. Spy] Should Otacon find or be found by the other seer, their powers will no longer be accurate. Town roles will be revealed as a wolf, and wolf roles as the town.
[Psychiatric Therapy] - Thanks to her knowledge of human nature and mind, Rose can easily tell when she is being lied to once per day phase.
[Fiery Leader] Meryl will take over the role of governor should Big Boss fall.
[Computer Prodigy] Due to Sunny's high skill with computers, she can switch the roles of two players temporarily once every other dayphase.
Johnny "Akiba" Sasaki-
[Trap Otaku] Johnny can choose to bypass all actions performed during the day or night phase. He may only do so twice. This will affect the phase during which the power was used.
[Secret Love] Akiba can detect any action performed on Meryl.
[Nano Immunity] His body contains no nanomachines, and therefor is immune to all player actions, excluding kills and lynchings.
[Eye Have You] He may choose a player to unlock up to three times.
[Lady Luck] She may not be killed unless directly targeted by Liquid.