Nothing happened between 'Alien 3' and 'Alien Resurrection' - which Weyland-Yutani or any US governmental agencies know about.
Unfortunately, if A3/AR are being preserved and this one just follows directly from 'Aliens', then the audience already knows nothing will get out of hand and the stakes will feel very limited, because all evidence will have to be destroyed before anyone important finds out what's going on.
If either of those two films gets retconned, however, then all bets are off. Heck, if A3 gets wiped, it's once again possible for any Alien to potentially mature into a Queen, which hugely multiplies their planetary threat factor (as would egg-transformation being a way to create a Queen).