Lena's ex, Jack Spheer, arrives in National City to roll out a new nanite medical procedure. However, Kara soon realizes that something more is going on when one of the human test subjects die under mysterious circumstances. Meanwhile, Lyra comes between Winn and James in their crimefighting efforts.

Alien refugees, the Phorians, trigger telekinetic quakes every time that Lena and Rhea activate the portal. While James tries to get through to one alien boy who knows where the others are, the DEO tries to find the portal before it's too late for National City.