Do you have two operating systems on your computer? If so it sounds like one is set to UTC and one isn't.
I don't, and actually the drive that I'm using was crispy and fresh out of the package just for Bodhi. I know, it's odd...and the thing was, with 4.0.0, the clock was correct. For me, I really don't mind that much, but just found it odd.
sudo apt-get install ntp
I can't remember if I tried this or not, I feel like I did, but I'll give it another shot.
Thank you Jeff and Stefan!