Tissue modification under laser radiation is emerging as one of the advanced applications of lasers in medicine, with treatments ranging from reshaping and regeneration of cartilage to normalization of the intraocular pressure. Laser-induced structural alterations can be studied using conventional microscopic techniques applied to thin specimen. Yet, development of non-invasive imaging methods for deep tissue monitoring of structural alterations under laser radiation is of great importance, especially for attaining efficient feedback during the procedures. We developed a fast scanning biomicroscopy system that can simultaneously deliver both optoacoustic and pulse-echo ultrasound contrast from intact tissues and show that both modalities allow manifesting the laser-induced changes in cartilage and sclera. Furthermore, images of the sclera samples reveal a crater developing around the center of the laser-irradiated spot as well as a certain degree of thickening within the treated zone, presumably due to pore formation. Finally, we were able to observe selective impregnation of magnetite nanoparticles into the cartilage, thus demonstrating a possible contrast enhancement approach for studying specific treatment effects. Overall, the new imaging approach holds promise for development of noninvasive feedback control systems that could guarantee efficacy and safety of laser-based medical procedures.