Surface electromyography (EMG) signals are inevitably contaminated by various noise components, including powerline interference (PLI), baseline wandering (BW), and white Gaussian noise (WGN). These noises directly degrade the efficiency of EMG processing and affect the accuracy and robustness of further applications. Currently, most of the EMG filters only target one category of noise. Here, we propose a novel filter to remove all three types of noise. The noisy EMG signal is first decomposed into an ensemble of band-limited modes using variational mode decomposition (VMD). Each category of noise is located within specific modes and is separately removed in sub-bands. In particular, WGN is suppressed by soft thresholding with a noise level-dependent threshold. The denoising performance was assessed from simulated and experimental signals using three performance metrics: the root mean square error ([Formula: see text]), the improvement in signal-to-noise ratio ([Formula: see text]), and the percentage reduction in the correlation coefficient ( η). Other methods, including traditional infinite impulse response (IIR) filters, empirical mode decomposition (EMD) method, and ensemble empirical mode decomposition (EEMD) method, were examined for comparison. The proposed method achieved the best performance to remove BW or WGN. It also effectively reduced PLI noise when the signal-to-noise ratio (SNR) was low. The SNR was improved by 18.6, 19.2, and 8.0 dB for EMG signals corrupted with PLI, BW, and WGN at -6 dB SNR, respectively. The experimental results illustrated that noise was completely removed from resting states, and obvious spikes were distinguished from action states. For two of the ten subjects, the improved SNR reached 20 dB. This study explores the special characteristics of VMD and demonstrates the feasibility of using the VMD-based filter to denoise EMG signals. The proposed filter is efficient at removing three categories of noise and can be used for any application that requires EMG signal filtering at the preprocessing stage, such as gesture recognition and EMG decomposition.