I change the icons in the bottom dock bar to what I want. After a restart the icons reset to only messaging being in the bottom right. Whay do they change. Running stock unrooted 4.4.2
Have you tried clearing the cache and data for HTC Sense in the manage apps - all menu? Warning that clearing htc sense data will wipe out a bunch of your settings. But being stock the only other options would be to do a factory reset or an ruu, but those wipe out everything.