Bearath's Blessing bonus skills lost on game load

To reproduce:

1. Start a new game
2. Select Bearath's blessing bonus skills
3. Create character
4. On captains ship view character summary to verify that the bonus is applied
5. Same game
6. Load saved game
7. View character summary to verify that the bonus does not appear

I noticed this when performing a sneak attack.

Before saving and loading saved game, my stealth was 3 and I the stealth detection meter filled as expected.

After loading a saved game, performing a sneak attack on the same enemy, the stealth detection meter filled much quicker.

 

Is this as designed, that the bonus skills will only apply as long as you dont load a saved game? 

Never had this issue.