I noticed no one mentioned trimming the empire tree. This can be mainly done before game start to not automatically pin planets, ships, fleets, etc. You can also pin/unpin in game to help trim the tree down. Many people have reported this helps with lag as well.
I keep capital ships pinned and pretty much unpin everything else.
Notice there is a no way to turn off auto pin of Star bases. You will have to manually unpin those if desired.
