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A method for the scattering of electromagnetic waves from cylindrical bodies of arbitrary materials and cross sections buried beneath a rough interface is presented. The problem is first reduced to the solution of a Fredholm integral equation of the second kind through the Green's function of the background medium. The integral equation is treated here by an application of the method of moments (MoM). The Green's function of the two-part space with rough interface is obtained by a novel approach which is based on the assumption that the perturbations of the rough surface from a planar one are objects located at both sides of the planar boundary. Such an approach allows one to formulate the problem as a scattering of cylindrical waves from buried cylindrical bodies which is solved by means of MoM. The method is effective for surfaces having a localized and arbitrary roughness. Numerical simulations are carried out to validate the results and to show the effects of some parameters on the total field. The present formulation permits one to get the near and far field expression of the scattered wave.