Judging from several threads in various forums: quite a few people seem to have this issue.I use various MacBooks. All of them had several iterations of OS X installed. Now I upgraded all of them to OS X 10.10 Yosemite.Several people noticed: On the new system you can set preferences for notifications for example (i.e. not seeing banners for every Facebook notification). However these settings are not being retained when the machine is being rebooted.Here are some reports of the issue:

https://discussions.apple.com/thread/6605975https://discussions.apple.com/message/26851563#26851563https://discussions.apple.com/message/26857242#26857242https://discussions.apple.com/message/26863504#26863504

Fortunately very clever people found a solution for the issue. I am referring the wonderful site:http://forums.macrumors.com/showthread.php?t=1803815So here is the step by step solution for the issue:

1. Open the Library folder in your Home folder.
2. In the Library folder, open the Application Support folder.
3. Locate the folder named NotificationCenter. Drag this folder to the desktop.
4. Next, open the Terminal application.Copy and paste each line of these commands into the Terminal window, in order. Press return after each line:cd `getconf DARWIN_USER_DIR`rm -rf com.apple.notificationcenterkillall usernoted; killall NotificationCenter
5. Close the Terminal app.
6. Restart your computer.
7. The notification preference changes won't stick until you restart a 2nd time after this.

This should be fixing the issue. Check for yourself if your Mac exhibits the issue and then let me know if the fix helps.