This work involves a validation of the photon and electron transport of the GEANT4 particle simulation toolkit for radiotherapy physics applications. We examine the cross sections and sampling algorithms of the three electromagnetic physics models in version 4.6.1 of the toolkit: Standard, Low-energy, and Penelope. The depth dose distributions in water for incident monoenergetic and clinical beams are compared to the EGSNRC results. In photon beam simulations, all three models agree with EGSNRC to within 2%, except for the buildup region. Larger deviations are found for incident electron beams, and the differences are affected by user-imposed electron step limitations. Particle distributions through thin layers of clinical target materials, and perturbation effects near high-Z and low-Z interfaces are also investigated. The electron step size artifacts observed in our studies indicate potential problems with the condensed history algorithm. A careful selection of physics processes and transport parameters is needed for optimum efficiency and accuracy.