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Self-heating fires, dust explosions and off-gassing during biomass storage are serious hazards which can have devastating consequences, resulting in worker fatalities and health impacts, as well as bioenergy plant destruction and complete loss of production. A compilation of incident reports involving biomass storage from 2000–2018 has revealed that these potential hazards continue to be a major concern in the bioenergy sector. Higher occurrence rates were found for incidents categorized as self-heating fires and fires of uncertain causes in recent years through our study of online reports. This paper highlights a critical need for improved safety protocols for bioenergy plant workers, detailed incident documentation and enhanced biomass monitoring strategies to drastically reduce the occurrence of threats associated with the storage of woody biomass. In order to manage the high risks associated with self-heating, a system for real-time monitoring of internal pile temperature was investigated. A monitoring system supplied by Braingrid Corporation was verified using embedded Tinytag thermologgers indicating that this methodology shows potential for preventing spontaneous combustion events by providing real time temperature data for superior pile management.