Jedi might win, because they can immobilize the Windrunner from a distance with the Force. Shardblades have greater reach, but are larger and slower; on the other hand, a liveblade can turn into a more convenient sabre or rapier as well. Personally, I think the Jedi would win by merit of slightly more versatile abilities and being more used to the ideal weapon for that kind of dueling.
However, if the Windrunner can change weapons, they could aggressively keep the Jedi reacting to entirely different modes of attack, and they're more powerful in their domain despite having less versatility.
So yeah, it would be a good duel. Brandon's suggested that a Jedi would win a regular Shardbearer duel, though.