More details needed:
- number, frequency and color of the blinks (a video is even better)
- if you start ML with default settings (from a freshly prepared card) and shut it down, does it turn off properly?
- if you start ML by holding the SET button at startup (ML loaded, but inactive), and shut it down, does it turn off properly?
- if the last two answers were "yes", you can start enabling your usual settings and narrow down (figure out which setting causes the problem)