Indesign export of PDFs - images in pdf fragmented, missing metadata

Can anyone help with this one?
We use InDesign CS3 to create PDF 1.6's, directly from InDesign export. The metadata contained in the images on the layout normally are visible in the PDF when you control click and select "show metadata" on the image with Acrobat's touch up object tools. Ocassionally, there is an unknown problem in the process where a given image will "fragment" -- when you click on it in the PDF, a frame surrounds only part of the image, and there's no "show metadata" choice to select. This is kiling us because we doconstruct those PDFs and put them into our long term archive, and the metadata is missing there!
Anyone know of any reason InDesign export would give such results?
Any help would be appreicated!
Thanks.

Thanks Bob,
We're just reviewing detailed data now, so it's unclear whether we have any cases where it's a placed PDF (most are tiffs, psds, etc). Good point - if the pdf within is a 1.3 that would be a problem. . .same too with a placed ID file, though I know for sure we're not doing that. I'll post what we find.
We are ok with regard to version patches. But, Bob, do you by chance know of any specific bugfixes (i haven't read the release notes) that address this? that would help to know too, so as to rule out some times in the past before the patch was applied where the problem occured.
Meanwhile David W. Goodrich's reminder of adobe technote 332920 if i read it right, suggests non raster images would fail to pass metadta, at least in CS2, i wonder if that applies to cs3 too. . .

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