In the Dawn of the Jedi comics, balance absolutely does include acceptance of the darkside. It means balancing the two (light & dark) within one self. In the Clone Wars Yoda’s vision requires him to accept the reality of his fear and anger that he’s denied for centuries in order to find balance.
The balance means that the Jedi’s relationship to the light helps keep them from giving into the dark emotions all the time, and the dark helps prevents giving into pure detachment and separation from the world. Both are necessary in the lore.