I don’t know if you had experienced issues with X9, but there was a constant crashing when using the Free Rotate tool. This, and other bugs have been worked on and there is already a second patch for X9.
You can find it here. Or you might want to go to your PSP, under Help > Check for update
Remember to save your workspace first!
Now, when installing a new version or a new patch, you will likely have to reset everything. Saving and loading your workspace is easy, right? How about your various settings under File > Preferences > General Program preferences? those are annoying to reset (and remember) so LeviFiction has created two scripts to do that for you! Check out this thread. And he also has a video explaining how to use those scripts.
Now, nothing is currently available for saving/resetting the File Location preferences. Unfortunately, you will have to do that manually… again!