Whatever Project Leda is and her connection to it, I found it peculiar that she "tested" Brenda about it before blowing her head off (which I can only assume she did
).
It's as if she wanted to make sure she didn't know and couldn't have told the Proletheans about it.
Obviously the Proletheans know about the Dyad and the cloning so Leda can't be the same thing or she would not be that concerned about it... ?