Missing image links NOT alerted, and not in Links panel

Don't know if this is a consequence of shifting my files and account across to a new Mac Pro, and re-configuring hard drive locations where linked image files are, but... I'm working on a document that spanned systems - finally coming to completion, and I'm writing the print PDF and found this problem.
InDesign CC 9.2.1 running on Mavericks 10.9.2 is NOT indicating missing links images in the Links panel. In fact it's not indicating the image on the page is even in the document - it doesn't appear in the Links panel, even though I see the image on the page.
I noticed this when proof checking a high res print PDF, and the image looked low-res. Odd as it shouldn't be. Went back to InDesign file to interrogate the image, and found when I clicked on it, it wasn't highlighted in the Links panel - where I have the Warnings, dpi and other columns active so I can quickly check problems. It wasn't there at all. InDesign seems to be blind to the image. When I right click the rogue images on the page I don't get the 'Graphics' section at the bottom of the drop down menu as I do with ok images. I guess because InDesign doesn't even know it's there?
Basically the image is visibly on the page, but InDesign doesn't appear to know about it..... What gives? I'm having to go through a long document now clicking on each image to check it's showing in the Links panel, then relinking every image that appears to be completely lost as far as InDesign is concerned not even knowing it's there.
I have "Reset All Warning Dialogues". Made no difference.
I worry about what other files are going to do this to me now and how much time will be wasted carefully checking validity of every image.

Thanks Peter, maybe that's it although I don't recall using that method of putting the image in the layout. It's not something I would normally do. Its some months ago mind you, and the client did send me a bunch of images to consider using so I may have just dragged their images into my early layout while scamping up the first draft, and it may be these images that have been 'lost' by I.D.
I normally create an image frame into which, using Edit - Place, select the image from a folder on the drive.
Sometimes (because the preview of images in the ID Place dialogue is so slow to build) I view images in a Finder window and select from there, drag-and-drop into a pre-sized Image frame in I.D.
I may have dragged an image direct from the Finder into Indesign not first creating an image frame for it to be placed into. But I thought I.D. would still note it as a Link asset, else why allow images of any kind into the layout if Links doesn't keep track of them for pre-press proofing use etc.
The (in the end just 4) images that were completely unknown to InDesign were all in image frames, scaled and cropped within the frame bounds. So I wasn't to know months later that I may have drag-dropped the image files uncropped etc into ID then subsequently cropped them (if indeed I had).
If you're suggesting this method of adding images quickly into I.D. won't list them in the Links panel, then I will make a conscious effort never to use that quick method again!

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But sooner or later I will have to place the whole thing on the server again…
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