Are you still using a separate 5V source for your sensors? If so is that 5V converter getting its power and ground from the same place as the megasquirt? Anything that feeds info to the MS needs to share power and ground with the MS.
VR generates its own AC voltage which is converted to digital signal/conditioned in the ms ecu. That’s why they are susceptible to noise. The Hall effect sensor is on its own 5v and doesn’t appear to have any issues with how it’s wired.
