I don't think the Ball and Chain has ever been in another game, which is surprising considering how many ideas get recycled in the series. The grass whistle idea seemed like it wanted to take an idea and do something new with it though it's more limiting instead
Dominion Rod is kind of a twist on a few other ideas like the Cane of Somaria, though executed in such a way to try to avoid abuse. Then you got the Spinner which is such a cool item it's being featured in at least 2 different indie games. But I don't think it's been in another Zelda game.
I want more tops!