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Accurate global mapping of lunar iron oxide (FeO) abundance is essential for understanding the Moon’s geological evolution and for supporting future in situ resource utilization (ISRU). While hyperspectral data from the Moon Mineralogy Mapper (M3) provide a unique combination of high spectral dimensionality, hectometre-scale spatial resolution, and near-global coverage, existing FeO retrieval approaches struggle to fully exploit the high dimensionality, nonlinear spectral variability, and planetary-scale volume of the Global Mode dataset. To address these limitations, we present an integrated machine learning pipeline for estimating lunar FeO abundance from M3 hyperspectral observations. Unlike traditional methods based on raw reflectance or empirical spectral indices, the proposed framework combines Discrete Wavelet Transform (DWT), deep autoencoder-based feature compression, and ensemble regression to achieve robust and scalable FeO prediction. M3 spectra (83 bands, 475–3000 nm) are transformed using a Daubechies-4 (db4) DWT to extract 42 representative coefficients per pixel, capturing the dominant spectral information while filtering high-frequency noise. These features are further compressed into a six-dimensional latent space via a deep autoencoder and used as input to a Random Forest regressor, which outperforms kernel-based and linear Support Vector Regression (SVR) as well as Lasso regression in predictive accuracy and stability. The proposed model achieves an average prediction error of 1.204 wt.% FeO and demonstrates consistent performance across diverse lunar geological units. Applied to 806 orbital tracks (approximately 3.5×109 pixels), covering more than 95% of the lunar surface, the pipeline produces a global FeO abundance map at 150 m per pixel resolution. These results demonstrate the potential of integrating multiscale wavelet representations with nonlinear feature learning to enable large-scale, geochemically constrained planetary mineral mapping.