The controlled assembly of the prototypical n‐type organic semiconductor N,N′‐1H,1H‐perfluorobutyl dicyanoperylenecarboxydiimide (PDIF‐CN2) into ordered nanoarchitectures and the multiscale analysis of the correlation between their structural and their electrical properties is reported. By making use of the Langmuir–Blodgett (LB) technique, monolayers of PDIF‐CN2 arranged in upright standing molecular packing on different substrates are formed. Postdeposition thermal treatment makes it possible to trigger a reorganization into layered ultrathin crystalline nanostructures, exhibiting structural and photophysical properties similar to those of microscopic crystals obtained by solvent‐induced precipitation. The controlled engineering of these molecular architectures on surfaces enables us to identify both a dependence of the monolayer resistance on the molecular tilt angle in vertical junctions and a pronounced charge‐transport anisotropy with enhanced transport along the π–π stacking direction of the PDI core. While a charge carrier mobility for electrons as high as 10–2 cm2 V–1 s–1 is determined in monolayer field‐effect transistors for the in‐plane direction, being the highest yet reported value for a n‐type LB monolayer, the out‐of‐plane mobility measured by conductive atomic force microscopy in multilayered structures is found to be one order of magnitude lower.