The thick Lake Pannon sedimentary record provides insights into the downdip and lateral development of stratigraphic surfaces through the analysis of the basin-scale clinoform progradation. The clinoform architecture from the eastern part of the Drava Basin (Pannonian Basin System) was interpreted to reflect the base-level changes. A major downlap surface interpreted as a flooding event followed by rejuvenation of slope progradation was recognized on 2D seismic sections. Detailed 3D seismic interpretation combined with well data revealed that the large sigmoidal and the overlying small oblique clinoform sets that downlap the large one only apparently produce the geometry of a maximum flooding surface. Instead, the 3D mapping revealed the influence of two competing slope systems arriving from the north and northwest. Lateral switching of sediment input, similar to many recent deltaic systems. e.g., Danube and Po rivers led to the variability of stratigraphic surfaces, lithology, and thickness, which resulted in non-uniform shelf-edge migration. These observations were supported by forward stratigraphic modeling simulating different scenarios, which led to the generation of the depositional architecture with an apparent maximum flooding surface. This study also implies the potential pitfalls in basin analysis based only on scarce 2D seismic and emphasizes the role of lateral variations in sediment input controlling the depositional architecture.