The aim of this study is to compare how different calibration methods influence the image quality of photon-counting detector computed tomography (PCD-CT) at high and low photon fluxes. We investigate the performance of flat-field correction, signal-to-equivalent thickness calibration (STC), and polynomial correction (PC) methods using polymethyl methacrylate (PMMA) and iron as calibration materials. Two different cylindrical imaging phantoms containing contrast targets were scanned: an agar phantom and a phantom consisting of titanium hip implant embedded in agar. The scans were acquired using 120 kVp, and the energy thresholds of the PCD were set at 10 keV and 60 keV to obtain low energy (10–60 keV), high energy (60–120 keV) and total energy images (10–120 keV). Additionally, virtual monochromatic images (VMIs) with energies between 60–180 keV with 20 keV increments were generated from PC data. The reconstructions were made using filtered back projection, and image quality was assessed by evaluating image noise, contrast-to-noise ratio (CNR), and image uniformity. Overall, STC with PMMA as calibration material yielded the best image quality in terms of CNR and uniformity. Flat-field correction produced uniform reconstruction at low photon flux, but the performance degraded substantially at high flux. STC with iron as calibration material did not improve the reconstructions of the titanium hip implant. The beam hardening effects arising from metal were reduced when the VMI energy was increased while the CNR evaluated from agar phantom decreased with increasing energy of the VMI. Over the methods investigated, STC with PMMA was the most optimal calibration method for PCD-CT, yielding excellent image uniformity with both photon flux conditions.