Interindividual differences in fear acquisition and extinction have been related to variation in specific brain correlates. However, variability in experimental setups complicates the integration of findings. Here, we present a combined fear acquisition (n = 101) and extinction (n = 88) experiment in which both phenomena were related to brain correlates obtained via functional magnetic resonance imaging in healthy, young participants. Correlates included regional brain volume, cortical surface area and thickness, neurite density and orientation dispersion, structural and functional connectivity. Fear responses were quantified as changes in skin conductance. Data from 376 brain areas and 70,500 network connections were used as independent variables in regularized regression models. Regression models of fear acquisition could be obtained for all modalities but regional brain volume. There were 284 predictors of which 77 appeared in exactly two models and 19 in exactly three. The latter primarily included brain areas from the somatosensory, insular, cingulate, and frontal cortices. Fear extinction yielded regression models based on neurite density, structural connectivity, and functional connectivity with 112 predictors in total. Two predictors, located in the dorsolateral prefrontal cortex, replicated across exactly two regression models (neurite density and structural connectivity). This study is the first to investigate the neural correlates of both fear acquisition and extinction in an explorative, multi-modal fMRI approach. Results show that numerous brain regions contribute to fear conditioning, some of them via more than one correlate. These findings call for further research to examine the potential interplay between brain correlates shaping fear conditioning.