The details on the programme were vague with regard to this, but the story that has come to light is as follows (NOTE: NOT ALL OF THIS WAS COVERED IN SOUL DEEP):
Sam Cooke was out drinking with friends one night, and went back to a motel with a girl who was waiting for him in the bar. It appears they spent the night together, and when he woke the next morning, she was gone. He also noticed that she had robbed his wallet and other valuables. At this point, he confronted the receptionist and hotel owner and demanded to know who the woman was, and where she had gone. what followed next is a mystery, but the owner of the hotel shot Cooke 30 times, claiming self-defence. Can't remember if she was acquitted or what.
It's not known if the woman who Cooke had spent the night with was known to him or, as some believe, a prostitute.
It's further unfortunate that the rumour originally circulating about his death (at least until the late '70s) was that he was shot by the hotel maid he had tried to rape. Of course, this was proved untrue by the series of events above.
Gene