Wasn't the "knot" based on an old method of measuring speed at sea wherby a rope with knots tied at regular intervals was thrown into the water and the knots counted as they were pulled off the deck by the current?Depth in modern nautical charts is expressed in metres.
The fathom is just one of many old units of measure, deriving from the times when trades and professions were much more self-contained than today, so the need to compare measures across different applications was far less. According to Wikipedia, the fathom seems to go back to the Ancient Greeks (ὀργυιά, meaning "outstretched" - the distance of a man's outstretched arms, approx 2 m or 6ft.).
(thought I heard something along those lines)