Tropane alkaloids (TAs) are toxic secondary metabolites produced by several Solanaceae species and represent an important food safety concern. Datura stramonium L. is a relevant TA-producing species frequently implicated in food contamination incidents. However, while information on TA occurrence across its organs and their toxicological significance remains limited, most analytical methods are primarily designed for contaminated food matrices rather than TA-rich plant materials. Therefore, this study aimed to optimize a methodology for TA determination in D. stramonium and to evaluate the toxicity of its extracts. Plant material was collected, homogenized, and subjected to extraction. QuEChERS-based methodologies reported in the literature were critically reviewed and adapted to develop an extraction protocol suitable for the high alkaloid content of D. stramonium. Different sample amounts (0.025–1.0 g) were tested while maintaining a constant solvent volume, and the influence of dispersive solid-phase extraction (dSPE) clean-up was investigated. TA profiles were determined by UHPLC-ToF-MS. Toxicological assessment was performed using Galleria mellonella larvae. The most suitable extraction conditions were achieved using 0.1 g of sample, whereas clean-up procedures did not significantly improve analytical performance. The predominant alkaloids detected in the seeds were atropine and scopolamine, with anisodamine and homatropine also being identified. Although no mortality was observed at the tested concentrations in the G. mellonella model, exposed larvae exhibited behavioral alterations and a statistically significant increase in hemocyte counts, suggesting sublethal effects under the tested conditions. These preliminary findings provide a methodological basis for TA determination in D. stramonium and may contribute to future risk assessment and source-tracing strategies for food contamination events involving TAs.