It was found that when the integration time of the detector was not consistent with the time when the correction parameters were obtained, the correction effect would get worse for the non-uniformity correction method of the infrared focal plane array detectors based on the blackbody calibration. The main reason was that the response of output pixel was nonlinear with integration time, and traditional blackbody calibration methods belonged to single point correction in the dimension of integration time. Aiming at this problem, an adaptive non-uniformity correction method for integration time changing was presented, which used multi-point correction method in two dimensions of radiation flux and integration time, thereby effectively solving the problem. In addition, this method used the actual response data as the calibration data, which can effectively save the parameter space. The mean value of local non-uniformity was used as the evaluation method of the correction effect, and the evaluation method could reflect the local characteristics of the residual after correction. Experimental results show that this method can effectively reduce the non-uniformity caused by the integration time changing compared with the traditional methods, and improves the engineering applicability of the methods based on the blackbody calibration.