Closed windows still occupy space after updating to Sequoia #2426

Description

After updating to Sequoia, I've encountered a problem where closed windows continue to occupy space and are treated as if they're still open. This issue persists in both the latest release and the latest git version.
SIP disabled as per guide.

Question

Has anyone else encountered this issue since updating to Sequoia? Any known workarounds or solutions?

Edit: attached a video of it. When i kill the process of the application the windows belong to, they stop occupying the space.