Process-based land surface models are important tools for estimating global wetland methane (CH₄) emissions and projecting their behavior across space and time. So far there are no performance assessments of model responses to drivers at multiple time scales. In this study, we apply wavelet analysis to identify the dominant time scales contributing to model uncertainty in the frequency domain. We evaluate seven wetland models at 23 eddy covariance tower sites. Our study first characterizes site-level patterns of freshwater wetland CH₄ fluxes (FCH₄) at different time scales. A Monte Carlo approach has been developed to incorporate flux observation error to avoid misidentification of the time scales that dominate model error. Our results suggest that 1) significant model-observation disagreements are mainly at short- to intermediate time scales (< 15 days); 2) most of the models can capture the CH₄ variability at long time scales (> 32 days) for the boreal and Arctic tundra wetland sites but have limited performance for temperate and tropical/subtropical sites; 3) model error approximates pink noise patterns, indicating that biases at short time scales (< 5 days) could contribute to persistent systematic biases on longer time scales; and 4) differences in error pattern are related to model structure (e.g. proxy of CH₄ production). Our evaluation suggests the need to accurately replicate FCH₄ variability in future wetland CH₄ model developments.