Previous studies have shown that face-specific recognition ability (FRA) is heritable; however, the neural basis of this heritability is unclear. Candidate gene studies have suggested that the catechol-O-methyltransferase (COMT) rs4680 polymorphism is related to face perception. Here, using a partial least squares (PLS) method, we examined the multivariate association between 12 genotypes of 4 COMT polymorphisms (rs6269-rs4633-rs4818-rs4680) and multimodal MRI phenotypes in the human fusiform face area (FFA), which selectively responds to face stimuli, in 338 Han Chinese adults (mean age 20.45 years; 135 males). The MRI phenotypes included gray matter volume (GMV), resting-state fractional amplitude of low-frequency fluctuations (fALFF), and face-selective blood-oxygen-level-dependent (BOLD) responses (FS). We found that the first COMT-variant component (PLS1) was positively associated with the FS but negatively associated with the fALFF in the FFA. Moreover, participants with the COMT heterozygous-HEA-haplotype showed higher PLS1 FFA-MRI scores, which were positively associated with the FRA in an old/new face recognition task, than those with the COMT homozygous HEA haplotype and HEA non-carriers, suggesting that individuals with an appropriate (intermediate) level of dopamine activity in the FFA might have better FRA. In summary, our study provides empirical evidence for the genetic and neural basis for the heritability of face recognition and informs the formation of neural module functional specificity.