Hey everyone, thanks again for all of the feedback and bug reports - please do keep them coming!
Patch 1.00.01 contains a hotfix for this issue here: https://steamcommunity.com/app/1730080/discussions/0/6980058383088563440/
If you had closed the game in your very first run, the game was forcing you to start the next run from scratch, rather than giving you the option to carry on from where you left off. This has now been fixed.
I'll be back later with a more substantial set of bug-fixes. For now, thanks for playing and hope you are enjoying yourselves!
- Steve