The invention discloses a multi-threshold optimized deformation inversion method and system of a micro-variable sensing early warning radar, and belongs to the technical field of radar detection. Themulti-threshold optimized deformation inversion method and system of the micro-variable sensing early warning radar can automatically identify an optimal threshold on the basis of acquired radar timing-sequence image maps, thereby improving the accuracy of deformation inversion results. The multi-threshold optimized deformation inversion method comprises the steps that S1, N+1 timing-sequence images are sequentially obtained on the basis of the micro-variable sensing early warning radar; S2, pixels according with threshold value conditions are screened out from the timing-sequence images by strict threshold value screening, and deformation quantity is calculated after the pixels according with the threshold value conditions are defined as stable points; S3, the threshold value conditions are relaxed gradually, pixels according with the relaxed threshold value conditions are correspondingly screened out from the timing-sequence images, and the deformation quantity is calculated after the pixels according with the relaxed threshold value conditions are defined as dynamic points; and S4, whether the current deformation quantity of the dynamic points and the current deformation quantity of the stable points are subjected to sudden changes or not is judged, if sudden changes do not occur, the S3 is carried out, and if the sudden changes occur, the current threshold value conditionsare output as optimal threshold values.