All of the mutations/changes inside the Shimmer are controlled by the alien thing in the lighthouse. And the alien always directed things to reflect/refract upon one another. So when the alien made itself into a clone of Lena, it was unwittingly giving Lena the power to control everything inside the Shimmer.
All Lena had to do was transfer her intentions/thoughts to the alien/clone and the alien/clone would mimic them. When Lena attacked the clone/alien, the clone/alien attacked back. When Lena fell to the ground dazed, the clone/alien fell to the ground dazed.
What I think happened was that Lena finally realized this. So when she gave the clone the grenade, she intentionally had suicidal thoughts, hoping the alien/clone would faithfully copy those thoughts. And it did.
And since the alien/clone was also in control of the Shimmer at the time, it not only self-destructed itself, but it also passed on those self-destructive thoughts to every mutant thing in the Shimmer, leading to the entire Shimmer's destruction.
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