There are several ways to accomplish what you want to do.
You can combine windows. Select Window > Combine Windows. That action creates a dashboard. You can save a script for it, to the data table for example. So you do not save the analyses themselves, but the script to run the analysis again later.
You can also save a static version ('snapshot') as a JMP Journal. Make the first window active, then select Edit > Journal. Make the second window active and select Journal again. You can save this file as a record.
You might find the JMP Project useful. This way organizes all your work: data tables, platforms, and so on, in one plat. You save the project as a self-contained file.