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I'm not sure what's going on but it happens for me too if I drag an EPUB to the Sigil dock icon to have it open. In such cases, whether dragging to the dock icon or using a launcher, sometimes Sigil additionally initializes an EPUB template as it does when opening without any specific EPUB. The template shows the menu fine but if I close that and then switch to the opened EPUB, the Sigil menu behaves as mentioned. Seems it's just the Sigil menu that doesn't show up properly; same as if Sigil is open without any EPUB: About and Preferences are missing.
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