Bionic Commando is a 2009 game in the Bionic Commando series. It is the direct sequel of the second game and its remake Bionic Commando Rearmed, released in 1988 for the NES and 2008 current gen systems respectively. The development team has gone on record saying they have looked through all the old games, including Mercs, for connections.
The events of the game take place ten years after the NES installment. According to Capcom's press release, this iteration follows Nathan Spencer (voiced by Mike Patton), a government operative working in the fictional Ascension City and an Operative for the Tactical Arms and Security Committee (or T.A.S.C.) which specializes in training bionic commandos like Spencer. He is betrayed by his own government and falsely imprisoned for assignations he had no part of, as the great bionic purge begins. Before his execution, an experimental weapon detonates in Ascension City, unleashing an earthquake along with a radioactive shockwave that leaves the city destroyed and wiping out its populace, with the threat of an invasion from a terrorist force. Spencer is now freed to redeem his name along with the T.A.S.C.'s and is reunited with his bionic arm which they had taken away.
Super Joe, a supporting character from the original NES version, also appears in the sequel. He is voiced by Steven Blum. The character is now identified as Joseph Gibson, the Player 1 character from the arcade game Mercs. In the new Bionic Commando, Gibson is the former lead director of the T.A.S.C., who assists Spencer to clear his name and in turn help bionics become legal again.