if a note in the imported GED file happens to have a dollar sign followed by digits, then both will disappear during the GEDCompare process.
In other words the note "It seems that $75 went a long way" will be changed during the GEDcompare process into "It seems that went a long way". I am guessing that the GEDcompare code is treating the [dollar sign + digits] as an undefined macro.
Other examples I have seen:
x $3.00 y becomes x .00 y
x $10.00 y becomes x .00 y
x $1000 y becomes x y