Penguins take bits of waste plastic they find washed up on the shore and use them in constructing nests.
While he wasn't sure why they did this, he thought it might be because they looked like shells.
The danger of this is that "plastic straps and cord in nests bring risks of penguin adults or chicks becoming tangled in the plastic," he said.
He said the health of penguin colonies like the ones around Napier Port were reflective of overall health of the marine environment.
The penguins in Napier seemed to be faring better, in part thanks to the sanctuary, he said.
While there is only one breeding pair currently, the sanctuary provides a safe enclosed space for up to 50 breeding pairs away from the public where dogs and cats can pose a danger to the 30 or so penguins which live in Ahuriri.
"We've got lots of little penguins around here."
The sanctuary also allows Cockrem to study the penguins' behaviour with the port, and is also sponsoring his research in other locations like Mana Island.
Part of this research has also involved tracking the penguins which led to him finding that many are swimming much further in search of food.
This results in abandoned nests and more chick deaths because parents can't get enough food for their young - like the 82 dead chicks recently found in Wellington.
He suspects this may be linked to warmer sea temperatures, which can affect the food chain and the availability of food sources.