This is a bug that has been created by the new update. I have spoken to muse about it, and they are working to try and resolve the issue.
I think it was patched to some extent, because I haven't noticed it in the past week, but maybe only half of the problem was fixed.
As The Mann said, emailing them a message to feedback@musegames.com would be a good thing to do.
PS: I just realised that I just posted basically the same thing to what The Mann and Pies had already said. I am always to slow to get the first post in... Hahah