rob You're going to want to read this, it's a quick read btw: https://www.linuxuprising.com/2018/05/how-to-get-flatpak-apps-to-use-correct.html
Essentially, you have flatpaks installed, but don't have the corresponding flatpak theme installed. This can happen when whatever theme you were using at the time when you installed the flatpaks apps, flatpak used that theme if it had it in its repos. Arc is a popular theme so it is indeed in their repos, chances are you just weren't using that theme at the time you installed the flatpaks, so flatpak didn't install the arc theme for you. Generally if you change your themes around, flatpak isn't going to automatically install the correct flatpak theme, you'll have to do that manually. This is a simple process though to fix. In your case, just to be on the safe side, close all your apps (save your work of course first), and open a terminal. I'd recommending using the terminal in a full sized window btw, it's going to help for this:
flatpak remote-ls flathub | grep org.gtk.Gtk3theme
This is going to show you all the available themes flatpak has in their repos. In your case you want to install one or more of these:
Arc-Dark-solid Gtk theme org.gtk.Gtk3theme.Arc-Dark-solid 3.22
Arc-Dark Gtk theme org.gtk.Gtk3theme.Arc-Dark 3.22
Arc-Darker-solid Gtk theme org.gtk.Gtk3theme.Arc-Darker-solid 3.22
Arc-Darker Gtk theme org.gtk.Gtk3theme.Arc-Darker 3.22
Arc-solid Gtk theme org.gtk.Gtk3theme.Arc-solid 3.22
Arc Gtk theme org.gtk.Gtk3theme.Arc 3.22
Run this command to install the Arc Gtk theme. If this doesn't work you might have to try the Arc-solid gtk theme fyi:
flatpak install flathub org.gtk.Gtk3theme.Arc
Try to open up cheese or librewolf now and it should be using your correct flatpak theme that matches your system. Anytime you change your theme, you have to manually install the matching flatpak theme if they have it in their repos, so it's something to be aware of. Hope that helps ya.
If the first theme command didn't work, then try this one as a backup (you dont need this is the first one work):
flatpak install flathub org.gtk.Gtk3theme.Arc-solid