Magistrate Richard Pithouse, who was appointed to the bench in 2008, was previously investigated for his comments to a rape victim and was also before a court charged with a driving offence.
He was spared a conviction when put on a diversion program after failing to immediately stop after he smashed into the back of a parked car and drove off in 2017.
Then, in 2018, Mr Pithouse suggested a rape victim had experienced "buyer's remorse" during a compensation claim, after being told she called a sexual assault crisis line the morning after the incident.
He also remarked "intoxication is not an excuse for the purposes of the Tribunal" and said the woman had "put herself in that position".
The Judicial Commission of Victoria investigated and found the remarks were highly inappropriate and insensitive.
The victim said she was left devastated by the comments and did not think he deserved to keep his job.
But he kept his position and in 2021 the commission recommended the magistrate instead be personally counselled by Chief Magistrate Lisa Hannan over his conduct.
A fresh complaint was lodged about Mr Pithouse's in-court behaviour in September last year, the commission said on Monday.
Details about the new complaint have not yet been revealed.
The commission recommended the magistrate be stood down from office in light of the complaint as it could amount to "proved misbehaviour or incapacity of the officer".
If he remained in the role, the commission said it would likely impair public confidence in Mr Pithouse or the court's impartiality, independence or integrity.
Ms Hannan agreed to stand Mr Pithouse down until further notice, preventing him from performing functions in an open court.
The standing down does not affect his salary, allowances or entitlements.
The fresh complaint was referred to an investigating panel in December 2022 and the investigation is ongoing, the commission said.
"As the investigation is ongoing, the commission will not be commenting further at this time," it said.
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