Composites of hydroxyapatite (HAp) are widely employed in biomedical applications due to their biocompatibility, bioactivity and osteoconductivity properties. In fact, the development of industrially scalable hybrids at low cost and high efficiency has a great impact, for example, on bone tissue engineering applications and even as drug delivery systems. New nanocomposites constituted by HAp nanoparticles and synthetic or natural polymers with biodegradable and biocompatible characteristics have constantly been developed and extensive works have been published concerning their applications. The present review is mainly focused on both the capability of HAp nanoparticles to encapsulate diverse compounds as well as the preparation methods of scaffolds incorporating HAp. Attention has also been paid to the recent developments on antimicrobial scaffolds, bioactive membranes, magnetic scaffolds, in vivo imaging systems, hydrogels and coatings that made use of HAp nanoparticles.