This study investigates how the absence of trichomes and variations in stomatal properties affect the quantum efficiency of photosynthesis in Arabidopsis thaliana during drought stress. We analyzed three genotypes: Col-8 (with trichomes and lower stomatal density), epf1epf2 (with higher stomatal density), and tmm-1 (lacking trichomes and altered stomatal characteristics) to determine the influence of these anatomical traits on photosynthetic performance. Under well-watered conditions, epf1epf2 and tmm-1 exhibited higher photosynthetic efficiency (Fv´/Fm´) compared to Col-8. During drought stress, Col-8 maintained stable Fv´/Fm´, while epf1epf2 and tmm-1 experienced significant reductions. Our findings indicate that the presence of trichomes and higher stomatal density positively impacts photosynthetic efficiency under optimal watering while the presence of trichomes becomes less crucial under drought stress. Efficient adjustment of stomatal density and size under drought conditions plays a more significant role. These insights emphasize the importance of considering anatomical traits in breeding programs to enhance drought resistance and photosynthetic performance in plants.