A protester has been arrested after being removed from a roof at a proposed McDonalds site on Melbourne's outskirts.

The woman was plucked from the roof early on Tuesday after police moved in to take control of the Tecoma site following weeks of protests by residents opposed to the fast food restaurant being built.

Police say their aim was to ensure contractors had access to the building site.

"This operation occurred at around 5am (AEST) this morning and the site was safely secured," they said in a statement.

Officers remain at the scene.

Dozens of protesters have rallied at the site on the city's eastern outskirts for weeks.

Last month, the Victorian Supreme Court ordered a temporary injunction blocking residents from disrupting the project.

Construction had been indefinitely delayed as Tecoma residents planted themselves on a roof and building unions decided to down tools in support.