A cut slope in Rajamandala, Indonesia exhibited unexpected large-scale deformation during the excavation process which was revealed by the clinometers attached to the preventive piles. A geological survey indicated that the mudstone layer composing the slope had been folded by tectonic movement and was highly weathered and eroded at the surface. The above internal factors could have resulted in the significant deformation of the slope, although few studies have focused on the influence of folded structures and horizontal in-situ stress on the deformation behavior of cut slopes. Therefore, the objective of this paper is to clarify the influence of the folded structure and anisotropic in-situ stress state induced by tectonic movement on the deformation behavior of the aforementioned cut slope. To achieve this clarification, numerical analyses were performed based on the explicit finite difference method included in the FLAC2D software using different geological structures and in-situ stress states. Consequently, it was revealed that such folded structures can lead to larger displacement in cut slopes when compressive stress concentration occurs at the bottom of the fold. Moreover, an anisotropic in-situ stress state can result in shear failure at the foot of the mudstone and reproduce the displacement of piles that possess shapes as close as possible to those observed at the site. These analytical results confirmed that the folded structure and anisotropic in-situ stress state were the inevitable factors in the large deformation of the cut slope in Rajamandala, Indonesia.