Could you post a video of the duckling breathing? What is the temperature in their brooder, and what breed are they?

Waterfowl often can suffer from Aspergillus, due to fungal spores in their environment. This is often due to poor management practices, that allow bedding to become filled with fecal matter, and become wet. The spores can start to colonize inside their lungs, and cause serious respiratory problems. Regardless if that is the problem or not, it would be a good idea to disinfect the duckling's brooder, and ensure the bedding, and feed is both kept as clean as possible. Increasing ventilation in their pen area, and allowing sunlight in may be beneficial too.

Fungal problems are often difficult to treat in ducklings, but the use of a fungistat may prove useful. You could use Nystatin, miconazole, or swab the inside of her mouth with gentian violet in hopes some of the moisture will pass into their lungs. Ideally, some sort of nebulization therapy would be done. You can try offering them warm soupy feed, or mashed scrambled eggs often. Let us know how they do.
 

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