Bug report:
So, I've stopped at 0.04 and when I tried to bugfix the game in 0.09, Bea dissapeared from the office and could only be found in either the memory room or a research room (which she isn't in when you've done the quest).
Hope this helps.
The bugfixes usually only work for stuff from the previous version (0.8 fixes 0.7 and so on).
So I think only way to transfer the file and make it functional would be downloading each version after 0.4 and using the bugfix in all... but I think it's better to just start a new save, pretty sure that even if you did that something would break :p