Teacher Clemency Wright said the pupils and their parents had got behind the cause and organised a fun run, which was held recently.
The pupils held a baking day to prepare food to sustain them on their laps around the school and rugby field.
They initially aimed to raise more than $200, to enable the group to buy plants to disguise the penguins's nesting boxes.
However, at last count the children had raised more than $1000. The pupils plan to help the group plant the flaxes next year.