According to some embodiments, a multithreaded microcontroller includes a thread control unit comprising thread control hardware (logic) configured to perform a number of multithreading system calls essentially in real time, e.g. in one or a few clock cycles. System calls can include mutex lock, wait condition, and signal instructions. The thread controller includes a number of thread state, mutex, and condition variable registers used for executing the multithreading system calls. Threads can transition between several states including free, run, ready and wait. The wait state includes interrupt, condition, mutex, I-cache, and memory substrates. A thread state transition controller controls thread states, while a thread instructions execution unit executes multithreading system calls and manages thread priorities to avoid priority inversion. A thread scheduler schedules threads according to their priorities. A hardware thread profiler including global, run and wait profiler registers is used to monitor thread performance to facilitate software development.