SummaryHow white matter pathway integrity and neural co-activation patterns in the brain relate to complex cognitive functions remains a mystery in neuroscience. Here, we integrate neuroimaging, connectomics, and machine learning approaches to explore how multimodal brain connectivity relates to cognition. Specifically, we evaluate whether integrating functional and structural connectivity improves prediction of individual crystallised and fluid abilities in 415 unrelated healthy young adults from the Human Connectome Project. Our primary results are two-fold. First, we demonstrate that integrating functional and structural information – at both a model input or output level – significantly outperforms functional or structural connectivity alone to predict individual verbal/language skills and fluid reasoning/executive function. Second, we show that distinct pairwise functional and structural connections are important for these predictions. In a secondary analysis, we find that structural connectivity derived from deterministic tractography is significantly better than structural connectivity derived from probabilistic tractography to predict individual cognitive abilities.