As volts go up so does the propensity to jump air gap. In the electrician world there is/was a question along the lines of: "what's the difference between 600V & 250V fuse?" The answer: "about 2 inches". Higher volts/potential generally create more spark in these situations. Also, the capacitors and other design features may be different enough between the 36/48V chargers to vary connection spark intensity.
However, I'd suggest you always get in the habit of powering on the charger and then connecting the battery to be charged. As somebody pointed out, this would create much less differential and spark. But powering on the charger 1st and then connecting the battery will also put less stress on the charger.