Script editor loses focus when running the game

[nyaro-p]

Tested versions

• Reproducible in: 4.6.dev5 to currently latest 4.6.beta3
• Not reproducible in: 4.6.dev4 and earlier

System information

Godot v4.6.beta3 - Windows 11 (build 26100) and CachyOS Hyprland 0.53.1 (Wayland), not OS specific - Multi-window, 1 monitor - Vulkan (Forward+) - integrated AMD Radeon (TM) Graphics (Advanced Micro Devices, Inc.; 31.0.21024.2004) - AMD Ryzen 5 5625U with Radeon Graphics (12 threads) - 13.84 GiB memory

Issue description

Starting with 4.6.dev5 script editor loses focus after starting and closing the game. Inputs like Ctrl-Z then unintuitively apply to the scene and not the code.

Steps to reproduce

1. Work in the script editor
2. Run the project (via F5 or button)
3. Stop running the project (via F8 or other)
4. Type on keyboard or use a shortcut, e.g. Ctrl+Z
5. Input is registered by the scene and not the script editor

Minimal reproduction project (MRP)

N/A

[akien-mga]

I can reproduce the issue on Fedora 43 KDE Wayland, with both the X11 and Wayland display drivers.
I confirm @nyaro-p's findings that the regression starts with 4.6.dev5.

[matheusmdx]

I can reproduce the issue, bisecting.

[matheusmdx]

Bisected to #113065. CC @KoBeWi

There's a PR that aims to fix this issue: #114680