Having jumping puzzles in wvw is fine, imo, however having lots of people in puzzles when there is a hard fought battle going on in the main zone and a queue to get in is not so good, it has potential to kitten a lot of people off.
Puzzles should be their own instance, dying in puzzle should put you back at the start of puzzle and exiting puzzle back into main map should put you in a queue if the map is full.
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Desolation ~ Just the [Tip]