Nanoscale products have many potential applications. The complexity of nanomanufacturing requires to position, manipulate and assemble nanoobjects to form asymmetric patterns. The atomic force microscopy has been proven to be a powerful technique for nanomanufacturing. Typical manual nanomanipulation using an atomic force microscope (AFM) is time-consuming and inefficient. Automated AFM tip path planning is desirable for nanomanufacturing, but does not receive much attention. In this paper, a CAD-guided automated nanomanufacturing system is developed to manufacture a nanostructure/nanodevice based on the CAD model of the nanostructure/nanodevice. The system is implemented to manipulate nanoobjects to manufacture nanostructures automatically.