Deleting Lighting Fixtures Breaks the 'Cleanup' Graphic Quality of Ceiling Elements executed Join Geometry earlier

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Deleting the Lighting Fixtures family Breaks the 'Cleanup' Graphic Quality of Ceiling Elements executed Join Geometry operation earlier, and also the resulting damage wouldn't allow me to retrieve the feature Cleanup back while making endeavor to administer the operation Join Geometry again, How am I Working Around to this issue?

Project files and its key illustrations as followed (They reside in my Google Drive, feel safe to access them):

20241012 1040 Issue & Inquiry SCR.01 · Lighting Fixtures entangled with JJ-ed CEs before.rvt
url:
https://drive.google.com/file/d/1-3oyQRs5E7PIXyxFYu8LWYhjZbqUKq9S/view?usp=drive_link

20241012 1050 Issue & Inquiry SCR.02 · Lighting Fixtures entangled with JJ-ed CEs then.rvt
url:
https://drive.google.com/file/d/1-0cgRfjIQRBNSVrZ0H96ipESP48Wix6M/view?usp=drive_link

Issue & Inquiry SCR.01 vs. Issue & Inquiry SCR.02.png
url:
https://drive.google.com/file/d/1-5AiVRMzXkRjBhuIzjohhe6HFhOhTLtg/view?usp=drive_link