SO! Good news for Loki is that Thor is CRAU from Duplicity with a Loki that was very much from the end of season 1 of the series, I think. So, Loki and Thor had a LOT of conversations about things. So, if you'd like to thread that out, it would be fine with me, otherwise, we can talk out what happened between them as well. I'm flexible.

TL;DR: Thor is more than happy to be on good terms with Loki because they're the only family they have left.