Parameterizing electroencephalography (EEG) signals in the spectral domain reveals physiologically relevant components of neural stochastic processes, yet the linearity or nonlinearity of these components remains debated and could not solved by the current Spectral Parameter Analysis (SPA). We address this using BiSCA (BiSpectral EEG Component Analysis), a likelihood-based model unifies EEG spectrum and bispectrum analysis to identify inter-frequency harmonic relationships and distinguish signal components. Simulations demonstrate BiSCA’s ability to separate nonlinearity from non-Gaussianity (e.g., linear non-Gaussian systems exhibit diffuse bicoherence, while nonlinear Gaussian systems show localized peaks). Analyzing 1,771 intracranial EEG (iEEG) channels and 960 subjects HarMNqEEG dataset, we uncover a clear organizational principle: the brain’s aperiodic (ξ) activity is predominantly linear, whereas its resonant (ρ) oscillations, including Alpha (α) rhythms and other peaks, are the primary source of cortical quadratic nonlinearity. This finding challenges the long-held notion of widespread linearity in large-scale brain signals, as our analysis reveals that over two-thirds of EEG and iEEG channels exhibit significant nonlinear characteristics. Spatially, we uncover a striking dissociation between signal power and nonlinearity: while the occipital Alpha (α) rhythm dominates in power, the parietal Mu (μ) rhythm generates the strongest nonlinear signature. These findings highlight that nonlinearity is present across the brain, arising from resonant activity. New Spectral domain Model (BiSCA) A novel model, BiSCA, which extends the phase blind SPA methods to third-order cumulant spectrum, is presented that jointly analyzes the spectrum and bispectrum, available to parametrize nonlinear EEG components in the spectral domain. Challenges Linear Brain Models The findings show that significant nonlinearities exist in whole-brain EEG, challenging the idea that these complex dynamics are averaged at large scales. Identifies Distinct EEG Component Roles The study reveals that the aperiodic (Xi) signal component is linear, while resonant rhythms (Rho), like Alpha and Mu, are the primary source of nonlinearity. Brain Nonlinearity across modality Analysis of extensive rs-EEG (960 subjects, 18 channels for each subject) and rs-iEEG data(105 subjects, total 1771 electrodes) confirms that the observation process of volume conduction does not decay nonlinearity. Separates Nonlinearity from Non-Gaussianity The method successfully distinguishes between true system nonlinearity and statistical non-Gaussianity, a crucial separation for accurate modeling. Maps Spatial Patterns of Nonlinearity The research identifies distinct topographic maps of nonlinearity, linking more substantial effects to specific brain regions and rhythms like the Mu rhythm in the parietal lobe.