>>31496262The first death was a fake-out, and the second death was retconned by Malvia stating that Lysandre is somewhere implying he's still alive.
J is definitively shown killed along with her crew when her ship blew up. That was the purpose of her visor floating up through the water and is a very common trope.
Cyrus may or may not be dead, we just don't know. He could be in another dimension, but Dialga and Palkia, destroyed the ball Cyrus traveled to, so who knows?