Hydroxyapatite (HAp, Ca10(PO4)6(OH)2) is the main inorganic component of hard tissues like bone and teeth. HAp incorporated with magnetic ions, play an important role in cell separation, magnetic resonance imaging (MRI), targeted drug delivery and in hyperthermia treatment of cancer. In this study, the effect of 60 MeV Si 5+ ion on the hydrothermally synthesized Fe 3+ doped hydroxyapatite (Fe-HAp, 33 nm) was investigated. At higher fluences, partial amorphization with an increase in the cluster size and surface roughness was observed. Depending on the ion fluence, pores ranging from 300 to 360 nm in size were produced. Irradiated Fe-HAp samples showed enhanced haemocompatibility and bioactivity. The drug (amoxycillin, AMX) loaded irradiated samples exhibited high antimicrobial activity.