This work is devoted to numerical modeling of the destruction and delamination of spatial systems made of nanomodified materials under static loading conditions. Modeling of thin adhesion layers at the microlevel is carried out within the framework of the relations of the refined iterative-analytical theory of deformation of spatial systems. Numerical integration of the resolving equations is performed by the finite element method. Modeling the degradation of the properties of nanocomposites due to the formation in them of various types of nano, micro, and macro damages was carried out based on the method of discrete-virtual propagation of micro and macro defects. The solution of nonlinear boundary value problems is carried out by the finite element method based on the Newton-Kantorovich algorithm, supplemented by a block that implements the iterative-analytical method of variable approximations. A virtual laboratory for determining nanomodified polymer materials' physical, mechanical and strength characteristics has been developed and implemented. A numerical simulation of the process of pulling out a nanotube from a rubber mass is carried out. The analysis of the accumulation of microdefects and the occurrence of macrodamages of delamination in the contact layer "nanotuberubber" is carried out. The results of numerical calculations are in good agreement with experimental data. The numerical modeling results of the change in the stress-strain state of nanomodified rubber specimens are given depending on the change in the coefficient of their reinforcement with carbon nanotubes.