Embodiments herein generally relate to implantable medical devices and, specifically, to a system and method for providing fault tolerant processing in an implantable medical device. In an embodiment a system for providing fault tolerant processing in an implantable medical device is provided. The system can include an implantable medical device comprising a processor and memory store configured to execute a plurality of threads, temporal and spatial constraints assigned to one or more of the threads, and a kernel. The kernel can include a scheduler and a thread monitor configured to monitor execution of threads against the temporal and spatial constraints, and further configured to issue a response upon violation of either of the constraints by one of the plurality of threads. In an embodiment a method for providing fault tolerant processing in an implantable medical device is provided. Other embodiments are also included herein.