You can continue to check out & submit the files to the depot as normal. The above change just affects how the Perforce client interacts with your filesystem.
If you are asking of an easy way to know what files to include in a build, we don’t currently supply a way to repackage builds. One useful tip however is to run UBT with -generatemanifest, which will generate an XML file in Engine/Intermediate/Something.xml. The command line would look something like this:
Build.bat UE4Editor Win64 Development -generatemanifest
Note that Built.bat is in Engine/Build/BatchFiles.
That should show you what files are built each time you build the engine. Alternatively I suppose you could ‘reconcile offline work’ in Perforce.