How can I make metadata saved to xmp file stay saved?

When a raw file badge shows that the file has been changed, I use Metadata Save to File & for the large majority of my images, the badge goes away and Metadata Status Changed does not show the file.  For some of my files, however, the Save to File command doesn't work properly.  If I am only displaying files with changes, the file briefly disappears, then returns.  Even if I go to Windows Explorer and delete the xmp file, then again Save metadata to file, it pops up again with the badge saying it needs to be saved.  Can anyone tell me what I might be doing wrong, or is there a bug?  I'm using Lightroom 4.3 64 bit on Windows 7.

I have determined one definite cause for this problem, documented (see 2nd post) here:
http://feedback.photoshop.com/photoshop_family/topics/lightroom_4_4rc_metadata_needs_to_be _saved_status_not_cleared_by_saving_metadata
As has been mentioned, following metadata save with metadata read is a work-around.
Note: you can see exactly, everything, the difference between metadata in catalog and metadata in xmp on disk, using ChangeManager's "Compare Catalog to Disk" feature; hint: choose 'No Exclusions' to see the "inconsequential" differences too. Reminder: this does a bunch of stuff involving xmp file copying and saving xmp / reading metadata / restoring afterward... - which presents lots of hoops to jump through, at first, in Windows, and forever, on Mac, but if you tough it out, you will get the pot of result gold at the end of the hoop rainbow...
Cheers,
Rob

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