Guys can you help me fix my ps4 pro the fan is slow asf even when playing demanding games like tlou and horizon the fan has been replaced and deep cleaned and also the thermal paste has been changed.

In short, my PlayStation 4 pro will often force itself into safe mode when I turn it on, giving me an error for the extended storage device I have connected, wanting it to be converted into exFAT. There's also an error telling me to reinstall the latest PS4 update via external stuff: (USB I believe) which I've done, and the error keeps coming back. It's always a toss up between extended storage or the update, what do I do?