### Godot version

Master (0ddd9c3e8f9088fa139e25b2903289d727073e12)

### System information

PopOS 22.04 - Intel integrated graphics - all backends

### Issue description

When there are popup windows in the editor, I cannot click on the "Confirm"/"Cancel" type buttons at the button. 

I have the issue both in the project manager (importing projects I can click on files etc. but cannot click "open") and when running the editor (cannot click "Save&Quit" etc.)

Sometimes the editor correctly highlights the buttons and I can use the arrow keys to navigate the buttons and "enter" to confirm my selection.

_I can navigate the editor closing dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-24-06](https://user-images.githubusercontent.com/16521339/212774269-d784ea5e-5921-4460-9124-48978939c8e7.png)

_I can't navigate the project import dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-29-00](https://user-images.githubusercontent.com/16521339/212774683-0a80795a-eed4-4e65-b2ca-3562c25d71fd.png)


### Steps to reproduce

Run the editor

### Minimal reproduction project

Reproducible in the project manager
"row_resize",
			"col_resize",
			"question_arrow"
		};
		img[i] = XcursorLibraryLoadImage(cursor_file[i], cursor_theme, cursor_size);
		if (!img[i]) {
			const char *fallback = nullptr;
			switch (i) {
				case CURSOR_POINTING_HAND:
					fallback = "pointer";
					break;
				case CURSOR_CROSS:
					fallback = "crosshair";
					break;
				case CURSOR_WAIT:
					fallback = "wait";
					break;
				case CURSOR_BUSY:
					fallback = "progress";
					break;
				case CURSOR_DRAG:
					fallback = "grabbing";
					break;
				case CURSOR_CAN_DROP:
					fallback = "hand1";
					break;
				case CURSOR_FORBIDDEN:
					fallback = "forbidden";
					break;
				case CURSOR_VSIZE: