The wife of an Islamic State recruiter who refused to remove her burqa in court has lost a brutality complaint against counter terrorism police and is facing a legal bill of up to $100,000.

Moutia Elzahed accused police of assaulting her during an early morning counter-terrorism raid at her southwest Sydney home in September 2014.

District Judge Audrey Balla threw out all six brutality claims on Thursday morning.

Ms Elzahed, whose husband Hamdi Alqudsi is a convicted Islamic State recruiter, had refused to take off her burqa to give evidence over the six-day hearing.

Scroll down for video

Moutia Elzahed had accused police of assaulting her during counter-terrorism raids at her southwest Sydney home in September 2014

District Judge Audrey Balla threw out all six brutality claims on Thursday morning brought by Ms Elzahed and her family

Ms Elzahed, who was the lead plaintiff, said police tried to pull the blankets off her when they entered her bedroom to raid the Revesby home she shared with Alqudsi and her two teenage sons at 4.30 in the morning.

She alleged she was punched in the ear, eye and head, called a 'b****', handcuffed in an aggressive manner, screamed at, and humiliated.

Both Australian Federal Police and NSW Police refuted her accusations.

Judge Balla ruled in favour of police in part because Ms Elzahed would not directly give evidence because she refused to take off her burqa.

Ms Elzahed's husband Hamdi Alqudsi (pictured) is a convicted Islamic State recruiter

'Ms Elzahed is a religious Muslim and she refused to give evidence in open court with her face uncovered. She also refused to give evidence from a remote room with her face uncovered (so that she could choose not to see who was watching her give evidence) with the court room closed so that only lawyers involved in the proceedings would be in the court room,' Judge Balla said in her judgement.

'I refused to permit her to give evidence with her face covered. Accordingly there is no direct evidence from Ms Elzahed.'

Ms Elzahed insisted she would only show her face if the other men in the room looked away.

Judge Balla argued she would have difficulty hearing evidence because the veil would mask her 'demeanour'.

Alqudsi is serving a six to eight year sentence for recruiting men to fight terrorist organisations including Islamic State in Syria

District Judge Audrey Balla threw out all six claims of police brutality on Thursday

Alqudsi and her son Hamza George, 17, gave evidence as to what Ms Elzahed had told them, but Judge Balla ruled their accounts were 'hearsay'.

Alqudsi gave evidence his wife's face was red the morning of the raid. But on cross-examination, he agreed she had been wearing a niqab and only her eyes were visible at the time.

Ms Elzahed was alone in her bedroom when police entered, meaning there were no witnesses to the alleged brutality - other than herself and police.

The claims of brutality brought forward by her sons Hamzah and Abdulla George, 16, were also dismissed.

One son claimed to have been 'pushed down on the floor with violence' and and handcuffed 'in an aggressive manner injuring his arms and wrists.'

The other son alleged he was slammed on a cupboard and still has marks on his stomach.

Ms Elzahed could be charged under new NSW legislation for disrespectful behaviour in court after refusing to stand for Judge Balla

'He was also pushed on the floor in a violent manner and handcuffed,' the son had alleged.

The family may now have to fork out legal costs of up to $100,000, Daily Telegraph reported.

Ms Elzahed could be charged under new NSW legislation for disrespectful behaviour in court after refusing to stand for Judge Balla.

When asked why, Ms Elzahed's barrister Clive Evatt said: 'She's a Muslim, Your Honour, a strict Muslim and according to my instructions she won't stand for anyone except Allah which I'm not particularly happy with, Your Honour'.

The offence went into force on September 1 and carries a maximum penalty of up to 14 days in prison or a fine of up to $1,100 if a person is found guilty.

Alqudsi is serving a six to eight year sentence for recruiting seven men to fight with terrorist organisations including Islamic State in Syria.