A stereoscopic camera with fluorescence visualization is disclosed. An example stereoscopic camera includes a visible light source, a near-ultraviolet light source, and a near-ultraviolet light source. The stereoscopic camera also includes a light filter assembly having left and right filter magazines positioned respectively along left and right optical paths and configured to selectively enable certain wavelengths of light to pass through. Each of the left and right filter magazines includes an infrared cut filter, a near-ultraviolent cut filter, and a near-infrared bandpass filter. A controller of the camera is configured to provide for a visible light mode, an indocyanine green (“ICG”) fluorescence mode, and a 5-aminolevulinic acid (“ALA”) fluorescence mode by synchronizing the activation of the light sources with the selection of the filters. A processor of the camera combines image data from the different modes to enable fluorescence emission light to be superimposed on visible light stereoscopic images.