Fdroid reporsitory often lags with updates. Apps often itself check source (github) for latest update on startup and prompt if available - nothing fishy.
It's recommended that you use fdroid/source packages only. Can try obtainium for updating all apps at once from GitHub if you find F-droid updates slow.
Another rec: do check out the Newpipe x Sponsorblock fork ( https://apt.izzysoft.de/fdroid/index/apk/org.polymorphicshade.newpipe), it'll cut out in-vid adverts or libretube if you'd like a better UX. Izzysoft is an amazing repository for FOSS F-droid Apps.
Aurora is great when you need a google play app. Although you should switch to F-droid version of Amethyst as it doesn't have play services built-in (used for translation and notifications).
Grab the Amethyst GitHub link ( https://github.com/vitorpamplona/amethyst) and throw it into https://github.com/ImranR98/Obtainium and it'll take care of all future updates.
1 more tip, F-droid client can be slow and clunky, try neo store (available on F-droid) for better UX and app discovery.