After updating today I ran into an issue. Several programs had broken dark-mode settings (open office, vscode, etc). The issue is related to adw-gtk3 and adw-gtk-theme being in conflict and the Manjaro gnome setup required adw-gtk-theme. Under adw-gtk3 the dark mode theme is ‘Adw-gtk3-dark’ and under adw-gtk-theme ti is ‘adw-gtk3-dark’. Minor, but important difference. To fix this simply run this command:

gsettings set org.gnome.desktop.interface gtk-theme 'adw-gtk3-dark' && gsettings set org.gnome.desktop.interface color-scheme 'prefer-dark'