In this work, we consider Cauchy-type problems for Laplace’s equation with a dynamical boundary condition on a part of the domain boundary. We construct a discrete-in-time, meshless method for solving two inverse problems for recovering the space–time-dependent source and boundary functions in dynamical and Dirichlet boundary conditions. The approach is based on Green’s second identity and the forward-in-time discretization of the non-stationary problem. We derive a global connection that relates the source of the dynamical boundary condition and Dirichlet and Neumann boundary conditions in an integral equation. First, we perform time semi-discretization for the dynamical boundary condition into the integral equation. Then, on each time layer, we use Trefftz-type test functions to find the unknown source and Dirichlet boundary functions. The accuracy of the developed method for determining dynamical and Dirichlet boundary conditions for given over-determined data is first-order in time. We illustrate its efficiency for a high level of noise, namely, when the deviation of the input data is above 10% on some part of the over-specified boundary data. The proposed method achieves optimal accuracy for the identified boundary functions for a moderate number of iterations.