Update reset my control bar, and other issues.

It appeared that Braintree installed without a problem, but I wasn't able to give the program a test. The first thing I noticed when I started up, is that my Control Bar reset to default. This may not seem like that big of a deal, but these issues are starting to creep into what little creative time I have these days. I also experienced having the program tell me that my subscription was running out, when I was only two weeks into my first month, and had to relog the CCC in order to get that message go away. But, that caused all my programs to go red in the CCC, and I had to reinstall everything, which took well over an hour to do. 
 
Anyone have an explanation for the program behaving this way? Is there something I'm doing wrong?