The former Victorian premier will be among the biggest names to front the inquiry, tasked with examining the integrity of the state's $150 billion Big Build infrastructure program, as confirmed during the commission's opening hearing on Wednesday.
Counsel assisting the commission Chris Young KC cited Ms Allan as one of several people named in a cabinet memo tendered during the hearing.
"Notices to appear and give evidence will be issued to each person named on this briefing in due course," he said.
The memo summarised a ministerial briefing on June 21, 2023, where concerns were raised about a range of industrial relations issues on certain public job sites.
Ms Allan, then transport and infrastructure minister, was named in the memo, although the signature box next to her name was empty.
She has denied being aware of the brief, which raised allegations of intimidatory behaviour towards contractors, as well as outlaw motorcycle gang members and criminals being present on government work sites.
"Whether, when, and how its contents reached the former premier are questions this commission will examine, and the former premier will have every opportunity to respond," Mr Young said.
A second briefing from senior authority figures, which was signed by Ms Allan the next day, shared anecdotal reports of criminal elements potentially becoming involved in state construction projects.
It flagged the behaviour had "the potential to significantly impact project costs and schedule", Mr Young told the inquiry.
The second briefing also cited separate industrial relations concerns it claimed were the "subject of a separate briefing" to Ms Allan, who resigned as premier on July 28 after being challenged by Ben Carroll.
The commission into Big Build, which comprises more than 100 projects, will run through the November election, the hearing was told, with upcoming hearing dates yet to be announced.
Premier Ben Carroll in July promised to set up the $50 million royal commission as his first act in government after he toppled Ms Allan, who had for months rejected widespread calls to launch a probe.
Commissioner Christopher Kourakis KC used his opening address to announce he would pursue "every person who is reasonably suspected of being complicit in the abuse of entrusted power for private gain".
"I assure the people of Victoria and warn all people who have done wrong that the commission will leave no stone unturned in search for whatever is hidden, or whomever lurks underneath it," he said.
"Anyone who has an ambition to remain in the industry will be better served by early voluntary disclosures to the commission than by waiting to be found out."
At the centre of the probe is the Construction, Forestry and Maritime Employees Union's Victorian branch, accused of widespread misconduct on job sites.
An explosive report by corruption-busting barrister Geoffrey Watson SC titled Rotting from the Top estimated alleged corrupt conduct by the CFMEU had effectively fleeced Victorian taxpayers of $15 billion.
"The CFMEU has a track record of ostentatiously defying the law," Counsel Assisting Chris Carr SC told the packed court room.
In the five years before the CFMEU was plunged into administration in August 2024, the union and its officers incurred more than $10 million in penalties owing to 1163 breaches of industrial law, Mr Carr noted.
Mr Watson on Tuesday told AAP he felt relieved to finally see the wheels of accountability turning.
A number of closed hearings, which Mr Kourakis said would have compromised the commission's ongoing investigations, have been held.
Further closed hearings will occur where necessary, Mr Kourakis said.
The royal commission's final report is due in August 2027.
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