Two new surrogate methods, the Small Shuffle Surrogate (SSS) and the Truncated Fourier Transform Surrogate (TFTS), have been proposed to study whether there are some kind of dynamics in irregular fluctuations and if so whether these dynamics are linear or not, even if this fluctuations are modulated by long term trends. This situation is theoretically incompatible with the assumption underlying previously proposed surrogate methods. We apply the SSS and TFTS methods to microelectrode recording (MER) signals from different brain areas, in order to acquire a deeper understanding of them. Through our methodology we conclude that the irregular fluctuations in MER signals possess some determinism.