That does work: you don't need to reference a clip inside PrPro, 'cos a clip inside PrPro is just the link to a footage on your hard drive. When you replace a clip or a group of clips in PrPro timeline with dynamically linked comp, AE creates a new composition and imports those clip(s) into the project. But then again, those clips are just links to original footages on your hard drive with properly set In and Out points in the newly created composition. Hence, select a missing clip in AE Project panel, right-click and choose Replace Footage -> File..., locate the original footage on your hard drive and open it up. If all missing footages are in the same folder, AE will automatically find the rest.
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