There's no way to save it. If you load saves from old versions, despite the warnings, it can cause a number of critical errors and it is easier to start the game with the checkpoint for chapter three, which in our game for this purpose.
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You need to have patreon-code to be able to start from chapter 3. You can read about the benefits of support at this link: https://www.patreon.com/shadow_portal/membership