Permissions and Forced Sandboxing

VScode, android studio or any IDE or app that requires system interactions is less useful or completely useless. For example, interacting with files or the terminal, seems to break when I download a flatpak. Especially apps that need to use the terminal (every IDE ever).
So how can I change this ? Connect the app with the system better. For example, changing the permissions to allow system terminal in an IDE (VScode)

How can this be achieved ?

The VSCode flatpak already has the necessary permission to punch out of the sandbox (--talk-name=org.freedesktop.Flatpak), but it’s not possible to make that happen automatically. Either the app itself (see GNOME Builder for example) or the user needs to explicitly spawn a host terminal. See: https://github.com/flathub/com.visualstudio.code#readme