The chemical industry is increasingly prioritising sustainability, with a focus on reducing carbon footprints to achieve net zero. By 2026, the Together for Sustainability (TfS) consortium will require reporting of biogenic carbon content (BCC) in chemical products, posing a challenge as BCC depends on feedstocks, value chain configuration, and process-specific variables. While carbon-14 isotope analysis can measure BCC, it is impractical for continuous industrial monitoring. This work presents CarAT (Carbon Atom Tracker), an automated methodology for calculating BCC across industrial value chains, enabling dynamic and accurate sustainability reporting. The approach leverages existing Enterprise Resource Planning data in three stages: (1) preparing value chain data, (2) performing atom mapping in chemical reactions using chemistry language models, and (3) applying a linear program to calculate BCC given known inlet compositions. The methodology is validated on a 27-node industrial toluene diisocyanate value chain. Three scenarios are analysed: a base case with fossil feedstocks, a case incorporating a renewable feedstock, and a butanediol value chain with a recycle stream. Results are visualised with Sankey diagrams showing the flow of carbon attributes across the value chain. The key contribution is a scalable, automated method for real-time BCC calculation under changing industrial conditions. CarAT supports compliance with upcoming reporting mandates and advances carbon neutrality goals by enabling systematic fossil-to-biogenic substitution. Through transparent, auditable tracking of carbon sources in production networks, it empowers data-driven decisions to accelerate the transition to sustainable manufacturing.