If you've every experienced any problems with save data, I have a quick fix in build 1.0.5 (currently available on the main site). It's called the Catch-Up Tool, and it can help catch up to any episode with all of your choices intact in about a minute. 

You can read up on the details in the 1.0.5 patch notes: https://www.reddit.com/r/ExitCorners/comments/6r9nbq/exitcorners_version_105_episode_release_schedule/

Cheers!