AbstractWe define the spatial clustering of X‐rays within Jupiter's northern auroral regions by classifying their distributions into “X‐ray auroral structures.” Using data from Chandra during Juno's main mission observations (24 May 2016 to 8 September 2019), we define five X‐ray structures based on their ionospheric location and calculate the distribution of auroral photons. The morphology and ionospheric location of these structures allow us to explore the possibility of numerous X‐ray auroral magnetospheric drivers. We compare these distributions to Hubble Space Telescope (HST) and Juno (Waves and MAG) data, and a 1D solar wind propagation model to infer the state of Jupiter's magnetosphere. Our results suggest that the five sub‐classes of “X‐ray structures” fall under two broad morphologies: fully polar and low latitude emissions. Visibility modeling of each structure suggests the non‐uniformity of the photon distributions across the Chandra intervals are likely associated with the switching on/off of magnetospheric drivers as opposed to geometrical effects. The combination of ultraviolet (UV) and X‐ray morphological structures is a powerful tool to elucidate the behavior of both electrons and ions and their link to solar wind/magnetospheric conditions in the absence of an upstream solar monitor. Although much work is still needed to progress the use of X‐ray morphology as a diagnostic tool, we set the foundations for future studies to continue this vital research.