One of Queensland's most senior police officers is being investigated over claims of misconduct at the time of the 2016 coronial inquest into the murder of Sunshine Coast teenager Daniel Morcombe.

Key points: Claims of misconduct by Assistant Commissioner Mike Condon being investigated

Claims of misconduct by Assistant Commissioner Mike Condon being investigated It's claimed Mr Condon colluded with other officers to prevent two detectives giving evidence at inquest

It's claimed Mr Condon colluded with other officers to prevent two detectives giving evidence at inquest Mr Condon is defending way he ran the Daniel Morcombe investigation

Assistant Commissioner Mike Condon was head of homicide in 2003 when the 13-year-old boy was abducted and murdered by Brett Peter Cowan.

A coronial inquest into the case in December last year spent two days examining the adequacy of the police investigation.

The Queensland Police Service confirmed on Saturday that Ethical Standards Command is investigating claims of misconduct at the time of the coronial inquest by Mr Condon, but would not elaborate on the nature of the probe.

However, the ABC has been told complaints made by former detective Dennis Martyn to the Crime and Corruption Commission have been referred to the Queensland Police Service, with the process to be monitored and reviewed by the CCC.

It has been claimed that Mr Condon abused his position by colluding with other officers to try and prevent Mr Martyn and another former detective, Kenneth King, giving evidence at the inquest and to find out what evidence would be given to try and discredit them.

It is also claimed by Mr Martyn that Mr Condon requested another officer to access files and disclose the complaints history and other personal details of Mr Martyn and Mr King.

Mr Martyn also claimed a report he wrote two weeks after Daniel Morcombe disappeared, in which he named Cowan as a prime suspect, went missing.

He said Mr Condon had the report, but Mr Condon denied he had received it.

Mr King and Mr Martyn were the first officers to interview Cowan and they both told the inquest last year they believed further resources including surveillance and search warrants should have been directed to him.

Mr Martyn told the 2016 inquest that then-Detective Inspector Condon dismissed a detailed report on Cowan and strong leads on the case that would have seen him caught years earlier.

But Mr Martyn said those concerns were rejected by Detective Inspector Condon at the time.

'An outrageous lie'

Mr Condon defended the way he ran the investigation, telling the inquest last year he was very comfortable with decisions made at the time.

He said at the inquest resources needed to focus on a car that was reportedly seen at the scene.

"My view is we had some 84 witnesses talking about a blue car," Mr Condon said.

He also told the inquest he recalled Mr King and Mr Martyn expressing their concerns about Cowan.

"Whilst it was very interesting at that stage, there was no direct evidence implicating Cowan in any offence," he said.

Outside court in December, Mr Condon said the allegations levelled at him at the inquest were not true.

"It was an outrageous lie and that officer committed perjury on oath — Cowan was never dismissed," he said at the time.

The ABC contacted Mr Condon for an interview.

A spokesperson for the Crime and Corruption Commission said it declined to comment.

Morcombe family won't comment further

Daniel Morcombe vanished while waiting for a bus at the Kiel Mountain overpass at Palmwoods on the Sunshine Coast in December 2003.

In 2011, Cowan confessed to the crime in a secret recording made by undercover police posing as criminal gang members.

Cowan was sentenced to life in prison in March 2014.

Daniel's father, Bruce Morcombe, said the Morcombe family were not part of the process of the police investigation and they would not comment further.