The purpose of this study was to suppress CSF flow artifacts in the fast FLAIR sequence at 3.0T MRI. We investigated the influence of thickness of the inversion pulse in the sequence on the high-intensity CSF flow artifacts based on the flow phantom and in-vivo studies at 1.5T and 3.0T. Results demonstrated that CSF flow artifacts at 3.0T were clearly stronger than at as 1.5T. Moreover, 3.0T was influenced by the crosstalk between each inversion pulse compared with 1.5T. The optimal setting of inversion pulse for two interleaving acquisitions for fast FLAIR imaging at 3.0T was approximately 1.5 fold on the basis of sum of slice thickness and slice gap. The appropriate setting of thickness of inversion pulse in fast FLAIR imaging reduces the incidence of CSF flow artifacts at 3.0T.