The 28-year-old, from Cloverdale in Perth’s northeast, who cannot be named and is nearly six months pregnant with a third child, appeared in Perth Magistrates Court on Wednesday.
She is charged with two counts of knowingly engaging in conduct that may harm a child in her care and is yet to enter a plea.
Her children are still in the custody of the Department of Child Protection, her lawyer Edward Fitzpatrick told the court.
It is alleged the children were left alone for one night from June 7 and after they were heard crying and screaming, police were alerted and found them the following day after entering the house through an unlocked door.
The woman was arrested on June 9 on her return to Perth from Bali.
The woman, a Chinese national, had gone to Bali to renew her visa and has previously said she was communicating with her children on an online app and complained that Australia Post had lost the children’s passports.
The woman’s husband was absent in the US at the time and it is understood has still not seen his wife or returned from the US.
The case was adjourned until August 17.