I would assume that President Obama took the option that he thought would lead to the least total death from the options that were offered. Those options were offered by the Generals, he cannot create war strategy by himself, it's unheard of. I'm sure they convinced him it was the best thing and gave him options leading him to the one they wanted him to take. That's how you sell your product.
The fact that Gates and McChrystal are both hold-overs from the Bush Administration would suggest they're continuing the Bush-era policy.
You can read about his views on the torture in Iraq. I feel that says a lot about him, maybe it's just me being judgmental.
So how does McChrystal respond to these questions? “We must at all times obligation treat detainees humanely… Military necessity does not permit us” to deviate from those obligations, says Senator Carl Levin, reading form McChrystal’s prepared statement.
**snip**
“I do not and have not condone the mistreatment of detainees and I never will.” McChrystal said he investigated every abuse allegation. But the interrogation structure was inadequate for his task forces. “We stayed within all the established and authorized guidelines, they were there when I took command,” McChrystal says. He says “constant improvement” turned something “acceptable and legal” into something “I could be more proud of” as time wore on. Concedes that he initially was informed by Rumsfeld’s memorandum authorizing “stress positions, use of dogs and nudity” and said that “some of were used.” He said he was uncomfortable with those authorized techniques and worked to reduce their usage.
http://www.harpers.org/archive/2009/06/hbc-90005091He was head of JSOC for 5 years so you can look at what they do, or did during his time, to get more of a picture. He was supposedly quite good 'friends' with Rumsfeld, for what it's worth.
http://en.wikipedia.org/wiki/Joint_Special_Operations_Command