This story goes along with the song Fix you by Coldplay
Jemma and Skye had finally admitted to themselves and each other just how much they meant to one another and then Skye was abducted by Ward, met her father, and gained a new power that they had no idea how to control. Skye felt herself lose control and she didn't know how to stop it from happening; she didn't want to hurt the people around her and the one person who she loved more than life itself, Jemma. They had come so far together and Jemma once she learned the truth about Skye, wanted to help her in any way that she could; she didn't want to lose her after losing Trip.
Jemma had tried hard to get Skye to finally control her powers and it seemed that no matter what they did to help her it wasn't enough, but she was not going to give up. Nothing was ever going to make her give up on Skye, she loved her too much to lose her to this new power. Skye felt the same about Jemma, but she was scared that this new power would take control and would end up hurting Jemma and Skye would never forgive herself if that ever happened.
Jemma continued to help Skye in any way that she could until Skye was able to control more than before, but then everything changed again.
"Jemma it's not going to work. I can't control this." Skye said defeated.
"We'll figure it out Skye." Jemma said still holding on to Skye.
"Jemma."
"Please Skye."
Then Skye left leaving Jemma to think that she went to go relax in their room, but little did she know Skye had packed up her stuff and was leaving. And she did without letting anyone know.