CYF could not take him to Christchurch until he was remanded back into its custody, which a Justice of the Peace did at the next court sitting, on Monday.
Arrangements for the teen's transport began before he appeared in court on Monday, in anticipation of him going to the residence, but "unfortunately, the required number of trained staff needed to provide safe and secure transport weren't available until Tuesday morning", Ms Anderson said.
"Police were also not available to assist with the transport."
The Justice of the Peace was made aware of the delay in adequate escorts being available and understood the youth would be moved, as soon as possible, to the youth justice facility, she said.
Dunedin-Clutha area commander Greg Sparrow said it was "an unfortunate set of circumstances".
It was not normal that a young person stayed in police custody longer then 24 hours, he said.