We know that six died at Baltar's house during the Caprica attack. Since a human is more fragile than a cylon, it is reasonable to believe that neither a human or cylon Baltar would survive the nuclear blasts either. Yet a Baltar appeared when (Galactica) Boomer and Helo did an emergency landing. How many other Baltar's were there on Caprica trying to hitch hike their way off planet?
We also have the problem of the ghosts. Six and Baltar have a tight relationship there - both ways. We have not seen anything that suggests either Baltar or Six are aware of their ghosts. We know that the ghost is a function of cylonness thanks to Six. We also know that other human characters in BSG don't see ghosts. This suggests the Baltar who sees a ghost is a Cylon.
The third issue is the re-imagining of the original BSG. Baltar was a traitor in the original movie/series. It is likely that there will be a twist where there is a human Baltar as well. It is my suspicion that the human Baltar is behind the ghosts in the cylon Baltar and Six, as well as responsible for the program of making a Cylon/Human child. The Six ghost has mentioned in the past that it is "their" child. It is likely that the human Baltar sees himself as the creator of the new race.
Prediction/speculation: Galactica Baltar is a cylon. Caprica Baltar is human.
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