Mr Clare, who oversaw a six-hour examination of the home, said there was no sign of forced entry.
There was "no activity'' beneath the open windows of the house, and no trampled gardens, Mr Clare told the jury of seven men and five women this morning.
Inside the victim's upstairs bedroom, police found religious books and hair straighteners.
There were no sheets on Charlene's bed, The bed covers were "scrunched up at the head of the bed'', Mr Clare said.
The next day ESR staff tested Gwaze's bed, which he shared with his wife Sifiso, for traces of blood and semen but returned negative results.
Mr Clare said the entire scene examination took four days before it was handed back to the Gwaze family.
Under cross-examination by defence counsel Jonathan Eaton, he admitted it was "one of the most detailed scene examinations'' he had ever conducted.
Mrs Gwaze found Charlene unresponsive in her bed at 5.45am on January 6, 2007.
The young girl was taken by the family to a 24-hour medical centre in Christchurch, before being rushed to the city's public hospital where she died the next day.
The trial continues.