Scott/Lydia/Stiles
I think people are getting this wrong, it's not about Lydia having stronger connection with Stiles than Scott, it's that she was the last one to see him + they used a different tactic so she had more time!
And we all knew this season was gonna be Stydia centred, Scott' and Stile's brotherhood has been the focus all along, I don't see a problem with Lydia and Stiles being in front now, especially because it's the last season and they won't have another season left to explore Stydia.
And I'm sure Scott and Stiles will have a beautiful reunion and we'll all cry.