During the 1970s, Flanagan was a proponent of pyramid power. He wrote several books and promoted it with lectures and seminars. According to Flanagan, pyramids with the exact relative dimensions of Egyptian pyramids act as "an effective resonator of randomly polarized microwave signals which can be converted into electrical energy."  One of his first books, Pyramid Power, was featured in the lyrics of The Alan Parsons Project album, Pyramid.
Inventions and discoveries
In 1958, at the age of 13, Flanagan invented the Neurophone, which he said transmitted sound via the nervous system to the brain.Life magazine called him a "unique, mature and inquisitive scientist". In 1968, the invention was improved by the development of a means of simplifying speech waveforms, for which he received a patent.
In 1982, Flanagan and his wife, Gael Crystal, were credited with the discovery of a new form of colloidal silica, known as a microcluster, in the glacial water consumed by the Hunza people of northern Pakistan. The Flanagans then sold a product utilizing the microclusters called Crystal Energy (the ingredients are water, silica, potassium carbonate, and magnesium sulfate), which they say lowers the surface tension of drinking water.
Flanagan, Patrick (1975). Pyramid Power. Camarillo, CA: DeVorss & Company. pp. 174 pages. ISBN0875162096.|accessdate= requires |url= (help)
Flanagan, Patrick (1975). Beyond Pyramid Power. Camarillo, CA: DeVorss & Company. pp. 67 pages. ISBN0875162088.|accessdate= requires |url= (help)
Flanagan, Patrick (1981). Pyramid Power II: Scientific Evidence. Tucson, AZ: Innergy Publications. pp. 162 pages. ISBN0940598000.|accessdate= requires |url= (help)
Begich, Nick with Flanagan, Patrick (Illustrator) (1996). Towards a New Alchemy: The Millennium Science. Anchorage, AK: Earthpulse Press. pp. 180 pages. ISBN0964881225.|accessdate= requires |url= (help)
Flanagan, Patrick (1997). Pyramid Power: The Millennium Science. Anchorage, AK: Earthpulse Press. pp. 173 pages. ISBN0964881268.|accessdate= requires |url= (help)