He was found not guilty of assault and the charge of racially aggravated conduct was found not proven.
However, this week, the General Teaching Council of Scotland (GTCS) is holding a hearing to determine whether Mr Marr is fit to teach.
Mr Marr, who is believed to live in West Calder, West Lothian, appeared at the GTCS hearing in Edinburgh on Tuesday.
During the hearing, he admitted making physical contact with the boy, but denied making the antisemitic and homophobic remarks.
He also admitted contacting a member of staff while suspended to ask them to contact pupils on his behalf regarding the incident.
The GTCS panel also heard this week that the pupil involved was consequently bullied by fellow pupils for being a “grass.”
Donna McMaster, who was headteacher at Inveralmond Community High at the time of the incident, said she thought Mr Marr should have “known better.”
She said: “It was inappropriate and unprofessional. Placing a bowl on the pupil’s head is not acceptable.
“Mr Marr could get involved in what I declare as a lack of judgement. I would have expected Mr Marr not to contact any teacher.”
Referring to other members of staff contacting him, she said: “I would expect Mr Marr to see it was not appropriate to reply back.”
According to a statement made by Mr Marr during an investigation at the time by West Lothian Council, he said the physical contact was a “gentle coax.”
He also said in his statement that he thought placing a bowl on the boy’s head was “playful.”
During the Livingston Sheriff Court hearing in 2015, the pupil said he felt humiliated after the incident.
He said: "I said: 'Go on, keep hitting me then' and he slapped me a further four or five times. The people closest to me were shocked but the other people in the class were laughing."
"He called me a poofy Jew. I just felt he was trying to humiliate me in front of the class. The others were just staring and laughing.
“He crouched down beside me and said: 'Are you going to cry, big boy?'"
While teaching PE at Inveralmond Community High School, Mr Marr was head of house which involved providing support to around 150 pupils.
It is understood that Mr Marr, 32, was suspended and later dismissed from his teaching role in 2014 following an investigation into the pupil's claims.
A West Lothian Council spokesman said: “It’s not appropriate to talk about past or present staff.”
The GTCS hearing continues.
