In-operando nano-scale resolution X-ray computed tomography (nano-CT) imaging provides an excellent new possibility to investigate a wide variety of phenomena in the electrodes of Li-ion batteries. The 3D X-ray imaging provides direct observation of internal morphological changes in electrodes with up to 50 nm resolution regarding standard materials and electrolyte, which is difficult or impossible to achieve by electron microscopy. Such fine resolution enables the possibility to observe detailed structural changes like the deposition of electrolyte decomposition products within the electrode, transition from Li intercalation to electroplating on graphite, and lithium dendrite formation and growth. One task for applying in-situ nano-CT imaging on Li-ion battery imaging is to develop special lithium battery cells compatible with both the nano-CT instrument’s sample size constraint and X-ray attenuation length limits of higher atomic number materials. Herein, we have developed a planar cell design that allows us to use commercial electrode, separator, and electrolyte. Successful charging and discharging has been achieved with this planar cell design using commercial graphite, LiMn₂O₄, and lithium foil electrodes. In-operando nano-CT imaging is performed on planar cell lithium battery with focus on graphite anodes. The experimental methodology developed in this study has applicability to test wide ranges of electrolyte, separators and other electrode materials in Li-ion batteries.