excercise calories for fitbit owners

I own a fit bit and love it. I have it linked to my account, but wanted to know if I should make any adjustments for bootcamp. I don't use the timer when I work out, only when I run. I would like to enter the activity but not sure if it would be double couning the calories burned by me doing that and it also counting the fit bit information. Can some one guide me here? Thanks!