Membrane distillation (MD) is a promising technology for wastewater treatment, but often faces significant challenges of scaling and wetting. Development of advanced omniphobic membranes has been the core research for mitigating scaling and wetting in MD. In this study, a novel fluorinated multi-scale silicon nanoparticle grafted corrugated (FSiC-PVDF) membrane (water contact angle 179.5 ± 0.3°) was prepared and explored for enhancement of anti-scaling performance by calcium sulfate and anti-wetting performance by sodium dodecylsulfate (SDS). Silica nanoparticles (SiNPs) were synthesized and covalently bonded to the surface of the corrugated membrane and the surface energy was further reduced via chemical fluorination. Flat-sheet membrane (F-PVDF) and corrugated membrane (C-PVDF) were compared. Results showed that compared to the previous study of grafting SiNPs on flat membranes directly, FSiC-PVDF exhibited superior flux (21.1 kg/(m2·h)), and it can consistently demonstrate stable water flux and quality even at high calcium sulfate and SDS concentrations. The F-PVDF experienced significant declines in performance, and the C-PVDF showed limited improvement in scaling and wetting resistance. Corrugation pattern contributed to a larger evaporation area and higher velocity near the membrane surface, thus reducing crystal deposition and heterogeneous nucleation on the surface. The combination of corrugation and SiNPs resulted in a stable Cassie-Baxter wetting state, reduced solid-liquid interface areas, and created slippage conditions that minimized the impact of contaminants on MD performance. These findings indicated that FSiC-PVDF membranes offer significant advantages for MD processes, enhancing operational stability and efficiency.