@PeterJones
If you are using one of the built-in themes, you might try to compare your %AppData%\Notepad++\themes___.xml with the version from c:\program files\Notepad++\themes,
I don’t have a custom theme; I just use whatever existing themes and modify them (just two, really). I just replaced my %AppData% theme with the “program files” themes, and the colors look okay again.
795725ad-50a6-4d40-a0cf-308501ed7cea-image.png
But both your margins being light gray imply that your theme was missing both those definitions when you ran 8.8.9 for the first time.
I am pretty sure that when I installed Notepad++, I just copied the old saved themes over, which is why the new styles were probably missing.
In this screenshot, I set one to Bookmark to salmon and Change History to yellow, to make it obvious which was which.
This makes it much easier to understand. Thank you!
Update: See our Change History Margin FAQ, especially the “How do I change the size” section, for an example of how to change the size using PythonScript or NppExec. (But yikes, I see that FAQ is out of date, since it doesn’t show the ability to change the four colors, which was added years ago… I will have to fix that next)
I am not that ambitious, but I am sure the update will be appreciated!
Thank you again, Peter. Not only did your post help fix the problem, but it’s also educational and shows me how dedicated people are to Notepad++.