I'm sorry I used the term bonus forgetting that there is a thing called bonus stats in the game that boosts things like charisma gain. I am talking about the fact that when you reload a save your actual stats like physics lowers to whatever you set in the creation screen not what it should be after you raised it. In the example I gave before I saved I worked out to increase physics as you can see in the first photo it isn't zero, but when I load back in it shows that I did work out but my physics stat changes back to 0. I'm sorry the way I used bonus made it sound like I was talking about the morning thing, I know that resets every morning. My bad.