This study focuses on the modification of natural hydroxyapatite (HAp) derived from clamshell by impregnation with palladium (Pd) at different pH in wet precipitation method to produce photoactive green materials for the degradation of synthetic dyes. It was found that, at pH 10, Pd has been successfully impregnated into HAp lattice with Ca/P ratio of 1.77 and particle distribution size range of 40-470 nm. The impregnation has resulted in the band gap of Pd/HAp at 3.19 eV, as calculated using Tauc's plot from the UV-Vis spectroscopy data of the Pd/HAp. Next, the photocatalytic activities of Pd/HAp were carried out with methyl oranges (MO) as models of water pollutants under UV irradiation. The photodegradation efficiency of the catalyst reached the optimum value of 41.63%, 48.17%, and 43.64% after 120 min of continuous UV irradiation for pH values 8, 10, and 11.5 of Pd/HAp samples, respectively. This study opens a new paradigm in using naturally derived materials as photocatalysts in the reduction of persistent water pollutants at a low cost and green sustainable approach.