Kew Primary School has told parents it will no longer run Special Religious Instruction classes.

The classes, provided by Christian organisation ACCESS Ministries, will cease after the second school term ends on June 27.

Jacqui Tomlins, whose children attend the school, said the decision is a cause for celebration.

"It was something that had concerned me for a while and it concerned other parents too," Ms Tomlins told 774 ABC Melbourne's Richard Stubbs.

Ms Tomlins is in a same-sex relationship and has in her blog described Access Ministries as narrow, prejudiced and homophobic.

She said the change had come about through a series of conversations with other parents at the school.

Those conversations resulted in many people pulling their children out of the classes.

Ms Tomlins said she is not anti-religion.

"I had lots of conversations with people of faith," she said.

"Even those people who had their kids in SRI (Special Religious Instruction) recognised that the brand of religion they were getting wasn't quite what they were after."

Although the classes were optional, Ms Tomlins said it was still disruptive to student's education.

"It was taking up time during the school day," she said.

"Under the regulations [students who opt out] are not actually allowed to do the curriculum."

Decision 'operational'

Kew Primary School Principal James Penson said the decision was made "on operational grounds".

"My decision has been made on the overall number students opting into the program and not on the quality or content of the program or its delivery," he said.

Victorian schools must offer SRI if approached by an accredited provider.

The only exception is if the principal of the school decides there are insufficient teachers available to adequately supervise students.

Mr Penson said at the start of the year 30 per cent of students were taking part in the classes.

However, as the year progressed a number of parents requested their children be pulled out of the program.

Only 20 per cent of Kew Primary School students are currently attending the weekly classes, so the school has decided to cease the program.

"It's very, very difficult to run a program where only one in five students are participating," said Mr Penson.

"I met with Access Ministries and outlined our reasons why.

"They were disappointed but accepted the decision."

Mr Penson said he wanted to thank the Access Ministries volunteers for making a positive contribution to the school.

Ms Tomlins said she is pleased with the way the school dealt with the situation.

"I was pleased with the result but I was also very pleased with the process," she said.

The school's announcement came the week before the High Court upheld a challenge to laws allowing for Federal funding of the School Chaplaincy Program.

Access Ministries has been contacted for comment.