As others have said, create a separate view that has all of your models in the order you want them in the Master View for new sequences. Name this view something other than "All Models" I named mine "Everything"
When you create a new sequence, after you select the timing, you have the option to select a view before choosing quick start. Choose "Everything" Then a new sequence will open with the View set to Everything. Click on the Master View and you will see the models are lined up the same way.