The best outcome for the country is Obama changing his mind and military commissions used to prosecute all the detainees that are prosecuted.
I don't think he will, at least voluntarily.
Consider what's in it for him: a political climate demanding convictions, which in US courts would seem nigh impossible without some exceptional rulings against defendants' rights. What will they decide? Perhaps they'll decide terrorist suspects are exceptions whose rights the government is not obliged to strictly observe. They may decide to exempt witnesses for prosecution to testify in person, allow evidence otherwise be considered hearsay, hold hearings in private, etc.
Thus precedents will set, which the government will exploit to prosecute any person it deems a "terrorist." Noticed who this administration regards as terrorists? A scenario like this no longer seems impossible to me.
Another thing 0 would like to do: prosecute the Bush administration. This is the crowbar that will get him through the door.
Note recent changes instituted with respect to international police?
What 0 wants is ultimately, I suspect, is to head some international body, with wide reaching powers over this country. The presidency is merely a stepping stone.
Call me paranoid, but this is the picture I see emerging.