Some detection signals such as the laser ranging echo, radar echo and so on will be coupled with a lot of noise in the transmission process, resulting in a decrease of signal to noise rate (SNR). The wavelet transform method, derivative method, interpolation method, polynomial fitting algorithm are usually used to denoise. The fast Fourier transform (FFT) accuracy being affected by the noise of CCD output signals in the experimental device for the laser wavelength measurement based on optical wedge interference has been studied, and then an adaptive ensemble empirical mode decomposition (EEMD) denoising model based on a special normalized index optimization is proposed. It’s shown that the experimental results for denoising of CCD output signals that the method can effectively improve the accuracy of the CCD signal denoising, simplify the denoising process and its operation difficulty.