<p>Malaria remains a critical global health concern, especially in tropical and subtropical regions, where it causes substantial morbidity and mortality. Current diagnostic methods, such as microscopy and PCR-based assays, are reliable but often impractical in resource-limited settings due to their dependency on complex equipment and skilled personnel. This study developed a novel malaria diagnostic platform by combining the Chelex-100/boiling DNA extraction method with a Loop-mediated Isothermal Amplification-MicroScanner (LAMP-MS) assay. The Chelex-100/boiling method is simpler and more cost-effective than conventional DNA extraction processes, making it suitable for use in resource-limited settings. The LAMP-MS assay enables multiplex detection through a microchip design with four chambers. Each chamber of the microchip is preloaded with specific primers targeting Pan, <i>Plasmodium falciparum</i> (<i>Pf</i>), <i>Plasmodium vivax</i> (<i>Pv</i>), and an internal control, minimizing non-specific amplification in multiplex LAMP reactions. In a clinical evaluation of 260 samples, the assay demonstrated a sensitivity of 97.5% for the Pan target and 100% for the Pf-specific target in the 80 <i>Plasmodium falciparum</i> (<i>Pf</i>) clinical samples. Similarly, for the 80 <i>Plasmodium vivax</i> (<i>Pv</i>) clinical samples, the assay achieved a sensitivity of 95% for the Pan target and 94% for the <i>Pv</i>-specific target. Notably, in the 100 non-infected clinical samples, the assay exhibited 100% specificity, with no false positives observed. These findings suggest that LAMP-MS is a rapid and reliable alternative to PCR-based methods, especially in resource-limited environments.</p>