I had the exotic bounty for Bad Juju prior to the patch, and when I logged in after patch went live it was no longer in my inventory. My elder cipher bounty is still there, but not the other exotic one. I can only assume that this is a bug, and was not intended, as it can take quite a while for those exotic bounties to become available to you.
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Same thing happened to me, but when I go to the Speaker the name on the reward is called "A light in the dark", which is the bounty for Thorn, and I had that completed a loong time ago. but nothing shows up on the reward space. Two bounties I had before the patch were completed, but the third one I had (this one for Bad Juju) just disappeared. Any ideas how to get it fixed?