An electric capacity measurement apparatus with temperature compensation and a temperature compensation method thereof are provided. The electric capacity measurement apparatus includes an electric capacity measurement circuit, a non-volatile memory, a temperature measurement circuit and a control circuit. The electric capacity measurement circuit is configured to obtain an input current signal and compensate the input current signal according to a present invalid current range or a present zero current offset to obtain an electric capacity signal. The non-volatile memory is configured to store a plurality of test parameters at different temperatures related to the electric capacity measurement circuit in a test stage. The temperature measurement circuit measures a present temperature value of the electric capacity measurement circuit in an operation stage. The control circuit generates a present invalid current range or a present zero current offset according to the present temperature value and the plurality of test parameters.