The use of data assimilation technique to identify optimal topography is discussed in frames of time-dependent motion governed by non-linear barotropic ocean model. Assimilation of artificially generated data allows to measure the influence of various error sources and to classify the impact of noise that is present in observational data and model parameters. The choice of assimilation window is discussed. Assimilating noisy data with longer windows provides higher accuracy of identified topography. The topography identified once by data assimilation can be successfully used for other model runs that start from other initial conditions and are situated in other parts of the model's attractor.