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Nowadays as thermal transient measurement is becoming a standard to investigate the thermal behavior of electronic devices, packages etc., the importance of avoiding any disturbances in the measured signal is also more relevant. One such thing that can corrupt the signal is the electrical crosstalk between different parts of the system or between the ambient and the whole system. However if the characteristic behavior of the crosstalk is known then special procedures can be designed in order to clean the corrupted signal from the disturbances. In our paper we present two methods to eliminate the disturbing effects caused by electrical crosstalk. The first approach is based on polarity inversion while the second utilizes multiple excitations to manage signal separation. To verify the feasibility of these methods, the procedure is demonstrated on electro-thermal MEMS devices.