We show that the volumetric field distribution in the focal region of a high numerical aperture focusing system can be efficiently calculated with a three-dimensional Fourier transform. In addition to focusing in a single medium, the method is able to calculate the more complex case of focusing through a planar interface between two media of mismatched refractive indices. The use of the chirp z-transform in our numerical implementation of the method allows us to perform fast calculations of the three-dimensional focused field distribution with good accuracy.