The relocatable classrooms had been permanently installed by then Education Minister Joan Kirner in 1989 and were never expected to be removed. 

However the department have begun collecting the portables and will move them to rapid growth areas.

Kyneton Secondary College council president Alan Todd said the blow to public school education could help revive the idea of the Kyneton Education Plan.

"The plan aims to amalgamate Kyneton secondary and primary schools and kindergarten but the funding has never been made available," she said.

"We're hopeful this debacle will see that idea revisited. 

"We will be ramping up issues in the lead-up to the election because we feel public schools have been allowed to fall behind in terms of support and funding."

Mr Todd said the decision to remove the portables followed Education Minister Martin Dixon's failure to act on a community petition calling for a reversal of the decision. 

He said removing the portables would see a significant impact on the college's successful transitional program and could reduce already waning enrolments.

"We're disappointed our request to retain our full junior program has fallen on deaf ears," Mr Todd said. 

He said it was a bureaucratic error that the classrooms remained on the portable register, as they were always expected to remain.

"We have spent $100,000 to upgrade these classrooms with the blessing and funding support from the government," Mr Todd said. 

"They were carpeted, integrated and roofed - and there is even a plaque out the front with Ms Kirner's name and endorsement. You don't put a plaque outside portable buildings - the fact is, they're no more portable than my house."

A spokesperson for the department said that despite the removal of two portables, the college would still have 11 classrooms more than required to meet projected enrolments.