Sulfuric acid baking of monazite ((Ce,La,Th)PO4) bearing ores is one of the major processes used in commercial production of rare earth elements. In hydrothermal vein type rare earth deposits, apatite is often found together with monazite. Rare earth enriched fluorapatite ores may also contain significant amounts of rare earths hosted in monazite. An understanding of the effect of apatite on the sulfuric acid baking of monazite is therefore important for the development of effective sulfuric acid based treatment methods for such ores. In this work, the addition of a natural hydroxyapatite (Ca5(PO4)3(OH)) sample to a monazite acid bake followed by acid leach was investigated using a combination of chemical analyses, SEM-EDS, XRD and TG-DSC. Hydroxyapatite addition significantly decreased the dissolution of rare earth elements from monazite in the leach after baking at temperatures above 300 °C. For a bake temperature of 500 °C, the rare earth dissolution in the leach dropped from 80% for monazite alone, to 30% for a 1:1 (w/w) addition of hydroxyapatite. This decrease in rare earth leaching was attributed to the formation of an insoluble thorium and rare earth bearing polyphosphate. The rare earth elements were incorporated into this polyphosphate phase in preference to calcium. At 800 °C, monazite was re-formed, causing a further reduction in rare earth extraction, while simultaneous formation of calcium pyrophosphate (Ca2P2O7) led to an increase in calcium and phosphorus dissolution. The detrimental effect of apatite could be partially overcome by the addition of goethite. Addition of goethite to the acid bake of a monazite/apatite mixture at 500 °C improved the total rare earth dissolution from 29% to 85% in the subsequent leach. Results also demonstrated that the order of reactivity, in terms of formation of polyphosphates is Fe > REE > Ca.