I have the same issue, but I cannot run the Nexus mission it disappeared and is not in any of my lists of mission, so if it was suppose to go into the story mission list it did not make it there.
Is there a new featured episode called "Melting Pot" after this latest update? If so, you can try running that new episode then check to see if the other episodes are available afterwards.
Yesterday, I heard from one that missions were incorrectly locked who said today those same missions were unlocked and appeared to be working correctly. I don't know if that's the same experience for all, but I'm hoping that is so.
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