The heir to Britain's throne was addressing delegates at the Royal Society in London on the issue of medicine and his concerns that antibiotics were being overused.
"It was one of the reasons I converted my farming operation to an organic, or agro-ecological, system over 30 years ago, and why incidentally we have been successfully using homeopathic - yes, homeopathic - treatments for my cattle and sheep as part of a programme to reduce the use of antibiotics," the 67-year-old royal said.
"Could we not devise more effective systems where we reserve antibiotics for treating animals where the use is fully justified by the seriousness of the illness?
"Would we, I wonder, advise adding antibiotics to our own food or water on a daily basis, just in case we became ill?" he said.
The Prince of Wales' Clarence House office later clarified, "Homeopathy is used on a case-by-case basis at Home Farm, in combination with more conventional medicine, to minimise dependence on antibiotics".
There are 500 farmers trained in homeopathy and 38 homeopathic vets, according to the UK Department for Environment, Food and Rural Affairs.