The first electrical differences in the gen2's showed up in '99. The example you give '95 & '06 have different part numbers, although probably wouldn't take too much modification to make it work.
If you want an exact harness try to go with '94 - '98.
2006 Ninja500R Purchased new July 2006; 0 miles. Miles as of January 2019; 102,137. It's a GO bike, not a SHOW bike.
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