If the brown spot is actually rust, and it's not covered by the DLC coating (very, very hard stuff), it should scrub off easily with a little metal polish, like Flitz/Simichrome. It would seem very odd to me, if the 'rust' spot was actually on top of DLC (Diamond-Like Carbon), which shouldn't rust at all. But if the discoloration is on top of the coating, I'd still think it should scrub/polish off pretty easily with the polishing paste.
Only other thought is, if the DLC itself is discolored for some reason. That might be hard to fix, and/or a possible warranty issue.
If the 'rust' spot is on the uncoated sharpened edge of the blade, then simply stropping with some compound should clean it up. For S30V, I'd think some 1 micron diamond compound should handle it easily.
Another thought: if the spot is on the sharpened edge (especially at the tip), I might also be concerned about heat damage by previous powered sharpening attempts, which can discolor the steel and usually damages the temper of the edge.
David