Firstly: You may just want to mark the Title and Copyright pages to compile “As-Is” (see the contents pane for those check-boxes). That will prevent Scrivener from messing with their formatting at all, and will also supresss the “Chapter ONE” prefixes and the “Title Page” titles from showing up at the beginning of the output for those pages.
Secondly (and long-windedly); In the binder, you have a number of ‘levels’ of folders and files that make this discussion a little ambiguous, depending on your settings in the Contents pane. If you chose “Book 1: A slice of Quietude” from the drop-down list in that pane, and checked the box that makes that folder effectively ‘level 0’, the way the Manuscript folder is often treated, then the following is true of the visible binder contents:
Your levels are…
Level 1 documents/folders: Title, Copyright, Part 1.
Level 2 documents/folders: Chapter 1
Level 3 documents/folders: Mat. Scene 1.1, M Scene 1.2, M Scene 1.3
Level 4 documents/folders: Q Scene 1.1, Q Scene 1.2
If you didn’t choose “Book 1: A …” from the Contents pane’s drop-down, then you can add 1 to the levels listed above.
The reason that all of those binder documents are highlighted in yellow for “Level 1+” is because there are no “Level 2+” rows in the Formatting pane. Click the + button to add another few levels, and you’ll begin to see how the levels pan out (you can always delete all but the level 1 rows, btw). You’ll also notice that the ‘stack’ of documents icon in the binder is only affected by ‘stack’ of documents rows in the compile’s Formatting pane.
Note that you’ll always have to have the M scenes at level 3, and ALWAYS have Q scenes at level 4 in order for your schema to work, since you can’t arbitrarily change the ‘single document’ icon to a ‘stack’ icon. I really wish there was a way to apply a given icon to a file in order for the Compile settings to treat those files differently than files with other icons, but there isn’t. (EDIT: If you want to force a level 3 “M” scene to have a ‘stack’ icon, add a blank document “under” it, then un-check that blank document’s “include in compile” checkbox in the inspector to prevent it from affecting your output.)
BUT… (This is about to get pretty turvy-topsy, so look away if the above seems confusing)
(THIS IS YOUR FINAL WARNING! IGNORE IF YOU DON’T FULLY UNDERSTAND EVERYTHING ABOVE THIS LINE!)
If you convert your part 1 and chapter folders to files, and your “M” scenes to folders, then un-indent the “Q” scenes so they’re at the same level with the M’s (just to simplify the binder layout), then you can more easily make the formatting of each scene conform to your preferred schema. You’ll have to completely customize the compile settings in the Formatting pane, as that’s not the default way of doing things AT ALL, but if you really dig into it, and stop thinking of the folder icons as containers, and rather as “M Scenes”, then it should all work out. This will work because all folders and files are essentially the same, for purposes of compiling, which is why you can check “text” checkbox in the folder row of Formatting.
(THUS ENDS THE SANITY-DESTROYING SECTION OF MY 2 CENT’S WORTH.)