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The short answer is: you can't. Saves consist of more than just that. Every module you visit has its own separate archive that tracks the changes in the module state like opened doors, looted containers, dead enemies, etc. Without that, the game would think you're entering every module for the very first time. You have two options. Suck it up and start a fresh playthrough, or look at one of the available save collections to use as a jumping off point and modify with KSE as needed.