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In this study, the microwave-induced combustion (MIC) method was evaluated for the sample preparation of the most consumed mushroom species in Brazil (Champignon, Shiitake, and Shimeji) and further halogen determination by ion chromatography (IC). For this, sample mass, combustion aid mass, and absorbing solution (H2O and 50 mmol·L−1, 100 mmol·L−1, or 150 mmol·L−1 NH4OH) were evaluated. Bromine and iodine concentrations, determined by IC, were lower than the limits of detection (LODs, Br: 6 mg·kg−1 and I: 24 mg·kg−1). Inductively coupled plasma mass spectrometry (ICP-MS) was also used for Br and I determination, and the LODs were lower (Br: 0.066 mg·kg−1 and I: 0.014 mg·kg−1) than those obtained by IC. Concentrations of Cl, obtained by IC, ranged from 523 mg·kg−1 to 13053 mg·kg−1 with LOD of 40 mg·kg−1. In turn, Br and I concentrations, obtained by ICP-MS, ranged from 2.49 mg·kg−1 to 5.50 mg·kg−1 and from