Just because Ally was right about another world and other selves doesn't mean she is right to drug people to see the truth or right that to two selves should be combined. Lucy is totally missing the big picture.
It might have helped if Sam just bluntly told her that the DoD knows that alternate universes exist. But it isn't necessarily a good idea to merge with your own doppelganger from another Earth because, if they are different enough from you in personality, then you would both effectively be committing suicide.
This whole storyline seems to demonstrate that law enforcement is basically non-existent on this Earth. No wonder they need Superman so badly. I mean come on, Ally feeds people illegal hallucinogens to the extent that some, like Lucy, nearly *die* and that's not enough to throw her in jail?!