The invention relates to a highly-maneuvering target micro cycle calculation method and a highly-maneuvering target micro cycle calculation system. The method comprises the following steps: step 1, acquiring an echo signal x of a target, wherein x={x1, x2,..., xi,..., xN}, i=1, 2,..., N, N is the number of pulses accumulated, and xi is the value of the echo signal at the ith point; step 2, calculating the overall translation estimated value of the target according to the echo signal of the target; step 3, using the overall translation estimated value of the target to compensate overall translation to obtain a micro signal after compensation; and step 4, estimating the cycle of the target according to the micro signal after compensation. According to the method of the invention, by processing Doppler ambiguity of the target and compensating the overall translation of the target, the estimated micro cycle of the target is more accurate and effective.