Miniature head-mounted single-photon fluorescence microscopy is a breakthrough approach for neuroscience research that has emerged in recent years. It can image the neural activity of freely moving vivo animals in real time, providing an unprecedented way to access neural signals and rapidly enhancing the understanding of how the brain works. Driven by the needs of brain science research, there have been many types of miniature head-mounted single-photon fluorescence microscopes, such as high-resolution imaging, wireless recording, 3D imaging, two-region imaging and two-color imaging. In order to have a more comprehensive understanding of this new optical neuroimaging technology, we classify its technologies according to the imaging field of view, introduce the characteristics of different types of micro-head-mounted single-photon fluorescence microscopes reported so far, and focus on the optical system scheme and optical performance parameters used. The advantages and disadvantages of different schemes are analyzed and compared and the future direction of development is described to provide reference for the practical application of brain science researchers.