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We study the deformation of Courant pairs with a commutative algebra base. We consider the deformation cohomology bi-complex and describe a universal infinitesimal deformation. In a sequel, we formulate an extension of a given deformation of a Courant pair to another with extended base, which leads to describe the obstruction in extending a given deformation. We also discuss the construction of versal deformation of Courant pairs. As an application, we compute universal infinitesimal deformation of Poisson algebra structures on the three-dimensional complex Heisenberg Lie algebra. We compare the second deformation cohomology spaces of these Poisson algebra structures by considering them in the category of Leibniz pairs and Courant pairs, respectively.