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How to fix broken QGIS project when folders structure has changed

The folder structures for our network was changed the middle of the night without consulting me. Usually if a shapefile moves location, QGIS will bring up a broken layers dialogue box for me to fix. Instead, for some projects, I can see the layers in the layer panel, but the status bar pulsates green with nothing happening. Other projects take a long time to open but eventually they do. Can someone help my understand what's happening and how to fix?