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Urdu toxic span detection remains limited because most existing systems rely on sentence-level classification and fail to identify the specific toxic spans within those text. It is further exacerbated by the multiple factors i.e. lack of token-level annotated resources, linguistic complexity of Urdu, frequent code-switching, informal expressions, and rich morphological variations. In this research, we propose MUTEX: a multilingual transformer combined with conditional random fields (CRF) for Urdu toxic span detection framework that uses manually annotated token-level toxic span dataset to improve performance and interpretability. MUTEX uses XLM RoBERTa with CRF layer to perform sequence labeling and is tested on multi-domain data extracted from social media, online news, and YouTube reviews using token-level F1 to evaluate fine-grained span detection. The results indicate that MUTEX achieves 60% token-level F1 score that is the first supervised baseline for Urdu toxic span detection. Further examination reveals that transformer-based models are more effective at implicitly capturing the contextual toxicity and are able to address the issues of code-switching and morphological variation than other models.