Ok this is where my confusion is/was
in above you say
a. Yes, when you restore a file from Quarantine you would be restoring the original file that was quarantined.
you show yourself restoring the files you uploaded that went to quarantine, so the new file was quarantined. So if a have fileoriginal.php and upload a file fileoriginalmodified.php going on video fileoriginalmodified.php is the one sent to quarantine.