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Happy to help, Keith - if you use the "Focus on" View menu command in project view, the results you see in the window will come from those folders/projects. However, the view menu settings from project view will not carry over to context view. (You may be seeing un-flagged items in context view, for example.)

So, the first step in getting what you want is to make sure you've focused (rather than just selected in the sidebar) the relevant items in Project view.

Next, set all your view menu options for both modes, save the perspective, and check the "also restore settings for other mode" box in the Perspectives menu. (While you're there, you can control which mode the perspective shows on open, or even tell it to always open up in a new window.)

Good question! I'm going to re-title your thread slightly, in case other folks wonder the same thing in the future.