A method and system for thermal and non-thermal laser treatments includes a visible laser source. A laser beam in the visible spectrum is generated by the visible laser source and produces a modulated laser output. Laser controls allows the user to generate the pulsed output with variable pulse characteristics to provide selective, localized and user controlled thermal and or non-thermal biological effects at a targeted tissues. This laser system modulates the delivered laser energy to produce accurate and selective targeting of the pigmented cells of the treated tissues to induce therapeutic effects via gentle warming of the cells without significant collateral damage to surrounding tissues.