PURPOSE: Deep learning-based reconstruction (DLR) has been developed to reduce image noise and increase the signal-to-noise ratio (SNR). We aimed to evaluate the efficacy of DLR for high spatial resolution (HR)-MR cisternography. METHODS: This retrospective study included 35 patients who underwent HR-MR cisternography. The images were reconstructed with or without DLR. The SNRs of the CSF and pons, contrast of the CSF and pons, and sharpness of the normal-side trigeminal nerve using full width at half maximum (FWHM) were compared between the two image types. Noise quality, sharpness, artifacts, and overall image quality of these two types of images were qualitatively scored. RESULTS: The SNRs of the CSF and pons were significantly higher with DLR than without DLR (CSF 21.81 ± 7.60 vs. 15.33 ± 4.03, p < 0.001; pons 5.96 ± 1.38 vs. 3.99 ± 0.48, p < 0.001). There were no significant differences in the contrast of the CSF and pons (p = 0.225) and sharpness of the normal-side trigeminal nerve using FWHM (p = 0.185) without and with DLR, respectively. Noise quality and the overall image quality were significantly higher with DLR than without DLR (noise quality 3.95 ± 0.19 vs. 2.53 ± 0.44, p < 0.001; overall image quality 3.97 ± 0.17 vs. 2.97 ± 0.12, p < 0.001). There were no significant differences in sharpness (p = 0.371) and artifacts (p = 1) without and with DLR. CONCLUSION: DLR can improve the image quality of HR-MR cisternography by reducing image noise without sacrificing contrast or sharpness.