A fast projection matching method for computed tomography (CT) images is provided. The method mainly bases on an iterative algorithm. The algorithm simplifies a traditional issue of three-dimensional projection matching into a two-dimensional projection-matching problem by pre-correcting the Y-axis offset and ϕ shift of each projection intensity image using common-line concept, thereby making the complex CT alignment processing faster and more reliable. This majorly reduces the hardware requirements for CT and data processing, which facilitates the applications in other three dimensional tomographic techniques, such as X-ray micro-CT or electron tomography.