Hybrid nanostructures from metal nanoparticles equipped with conducting polymer shells are of great interest for use as functional materials in sensing and optoelectronics, as well as for ink-deposited conductors. Here, we investigate the charge transport mechanism of nanostructures composed of gold nanoparticles coated with a polyaniline shell (Au@PANI). In particular, we focus on the charge transport behavior in two different geometric systems. Highly ordered linear assemblies of Au@PANI nanoparticles were fabricated using template-assisted assembly, while bulk-like films were obtained via drop-casting. Temperature-dependent transport measurements were analyzed using established conductance models. In a higher (175-300 K) and lower (50-150 K) temperature range, bulk-like films of Au@PANI nanoparticles show good agreement with Arrhenius-type activation and Efros-Shklovskii Variable Range Hopping, respectively. Measurements on linear assemblies were conducted at higher field strength, due to nanoscale electrode geometries. These assembles exhibit more localized transport, indicated by a highly non-linear current-voltage behavior. Here, the temperature dependencies was described using an Arrhenius-type activation at higher temperatures (≥125 K); in contrast, non-thermally activated processes became effective at lower temperatures (<125 K). Our findings provide insights how geometry of particle assemblies and electrode configurations influence the charge transport behavior in Au@PANI nanoparticle assemblies.