Previous attempts to scare away the pigeons had failed so the council this year resorted to deploying thousands of yellow stickers scented with citronella and garlic at pigeon-width intervals under the pier to try to deter them from roosting.
The project, undertaken with a £15,000 grant from the Environment Agency, significantly reduced the number of pigeon and seagull guano getting into the water.
Blackpool North and Blackpool Central had also faced blacklist, in part due to droppings from donkeys doing tourist rides.
Donkey owners were urged to clean up after the animals to avoid the faeces being left on the sand and washed out to sea.
But the local council said that the main issues, involving sewage, had been eradicated because United Utilities had invested £160million worth of infrastructure improvements.
Agriculture was cited as the main pollutant at several beaches often due to effluent from livestock grazing near streams that feed into the sea, and new cattle fencing was installed to tackle the problem.
Many other beaches had problems from sewage treatment works or sewage overflows.