"Experts are investigating the discovery of the birds at Scapa and other beaches in recent days.
They do not yet know why the birds are dying but they believe it is unlikely to be avian flu.
There's a couple of different theories, one including the recent storms.
Surviving puffins are being treated by vets, while the deaths have been reported to the Department for Environment, Food and Rural Affairs.
Earlier this year a large number of seabirds, including puffins, guillemots and razorbills were found dead or starving along the eastern coast of the UK".
Prof Mike Harris at the UK Centre for Ecology and Hydrology (CEH) is trying to gather data about the puffins, but said the early signs were concerning.