I have this exact same issue - double flippers mid game causing reset, can start new game with start button (it's in free play). Have updated PSU per Vid1900 bulletproofing doc. I will check my 5V. I will also check the diodes on the coils for my flippers.
Rottendog MPU327 MPU board by the way. Has worked really well for a long time.
Any other advice?
Thanks for this post Yoko2una