Can scabies cause other symptoms like feeling run down an anxious? The doctor said it was scabies and not herpes but I'm still nervous.

Technically no. But the fact that you have scabies may have been emotionally upsetting and that can make one feel nervous and run down. If it persists, then see your doctor. You may need some abs...Sometimes anemia or nutrient deficiencies can also make one feel run down. Anxiety definitely wears on out as well....