Thanks for the attached screenshots.
The only thing I can think of is that you have all instruments/layouts showing for both flows. You can select which instruments & layouts to use in Setup Mode as shown in these attachments. I didn’t mention this part of it because my attempt didn’t require it. (Did you allow merging perhaps when you imported the flow?)
By the way even though you are seeing both flows in both windows, operationally, it should work fine. It’s probably less confusing to not see both flows, however, so this should fix that aspect of it.
Let me know if it works!
Other info - this is pretty cool! The 3 panels in Setup that are on the right, left, and bottom are always linked. For instance, if you click on a layout in the right panel, you will see which flows contain that instrument (bottom panel), and which players (instruments) are used in that layout (left panel). Or, clicking on a Flow in the bottom panel will likewise show you which players are in that flow (left panel), and also which layouts are contained in the Flow (right panel). And, if you click on a player (instrument) in the left panel, you will also see which Flows that player uses (bottom panel), as well as which layout(s) that player is in. So you always have a view of what is going on with all the connections and any change you make in any area (players, flows, or layouts) will update the other 2 areas because they are linked! And you start all this editing or investigating by simply clicking either a Flow, Player, or Layout. And all of this including and excluding players and layouts per flow is the magic behind having multiple movements or sections of music that utilizes differing instrumentation. It is pretty slick!