Why do imported files disappear after disconnecting the card reader?

I recently replaced my hard drive and upgraded to OS X Yosemite 10.10. I restored my computer from a backup on an external hard drive. Since then, Lightroom 4 has been losing my files. They appear to import normally and are still in the catalog as long as the card reader is plugged in, but as soon as I disconnect the card reader Lightroom can no longer find the files and they do not show up when I attempt to search for them by name. What's going on? How can I get Lightroom to store my files as it did before?

Move and Add are normally disabled for non-hard drive removable media. This is to prevent people from losing photos and all the work they might have done on those photos. 
Normal Procedure is to:
1. Insert your camera's media
2. Import into Lightroom using Copy which will make a duplicate of your file from your media and store it on your hard drive (or external hard drive - which ever you specify)
3. Remove media
4. Work on your images in Lightroom from the location they were copied to - never from the original media
Lightroom 4 - Importing and Organizing Your Images | Getting Started with Adobe Photoshop Lightroom 4 | Adobe TV

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