Many flatpaks no longer open after a system update: GTK errors

A few that I've discovered that will no longer open are Handbrake, BoxBuddy, and Flatseal.

Attempting to run handbrake via terminal gives the following error:

(fr.handbrake.ghb:2): Gtk-WARNING **: 18:33:33.376: Unknown key gtk-modules in /home/jacob/.var/app/fr.handbrake.ghb/config/gtk-4.0/settings.ini

The referenced settings file does not seem to exist.

For Flatseal and BoxBuddy I get the following errors:

(boxbuddy-rs:2): Gtk-WARNING **: 18:34:33.794: Unknown key gtk-modules in /home/jacob/.var/app/io.github.dvlv.boxbuddyrs/config/gtk-4.0/settings.ini

(boxbuddy-rs:2): Adwaita-WARNING **: 18:34:33.843: Using GtkSettings:gtk-application-prefer-dark-theme with libadwaita is unsupported. Please use AdwStyleManager:color-scheme instead.
Gdk-Message: 18:34:33.971: Error 71 (Protocol error) dispatching to Wayland display.


** (process:16666): WARNING **: 18:35:07.284: Error writing credentials to socket: Error sending message: Broken pipe

(com.github.tchx84.Flatseal:2): Gtk-WARNING **: 18:35:07.362: Unknown key gtk-modules in /home/jacob/.var/app/com.github.tchx84.Flatseal/config/gtk-4.0/settings.ini

(com.github.tchx84.Flatseal:2): Adwaita-WARNING **: 18:35:07.412: Using GtkSettings:gtk-application-prefer-dark-theme with libadwaita is unsupported. Please use AdwStyleManager:color-scheme instead.


I've confirmed that these applications worked before by booting for the previous image in grub. Any ideas on how to fix?
Solution
Manually refreshing for updates in Discover and installing them seems to have resolved the issue
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