Isso provavelmente é Taken , uma minissérie produzida por Steven Spielberg.
A garotinha Allie Clarke (revelada como um híbrido alienígena) foi interpretada pela conhecida atriz infantil Dakota Fanning.
Vou abordar os pontos que você lembra com aspas da página da série na Wikipédia e na página wiki do personagem ligada a ela.
Gêmeos que morrem explorando um navio:
Gladys and Mavis are the famed Erenberg twins, and they're psychically linked to each other. They are taken to New Mexico as guinea pigs in Owen Crawford and Dr. Kreutz's alien program. They demonstrate their abilities when one of the twins visualizes a bunch of flowers, while the other draws a mentally accurate depiction. Crawford and Kreutz hope the Erenburg twins could fly the alien ship that crashed near Roswell. But those who enter the base don't come out alive: colonel Crawford intentionally makes them stay in the ship, thus exposing them to enough energy to kill them - a property of the alien technology that was already known.
Allie remove implantes:
After John taught Allie how to remove the implants, she used the ability on everyone that came to protect her at the farmhouse so they wouldn't be taken anymore, and would no longer be afraid.
Deixa com os alienígenas:
When the hybrid Allie Keys departs with the aliens, the Artifact is teleported away with them.