I don't know the scientifically correct answer, but I've done what you are asking about.
I took the capsule apart and poured a small amount into a spoon. I had another spoon ready with 1.5 cc of 95 F water, added the culture to the water, and stirred with a toothpick until it looked fairly well mixed. Then I sucked some up into a one-cc syringe and fed it to the lizard.
It made sense to me to feed the flora booster halfway between doses during medicine dosing. When the dosing was over I dosed for five consecutive days and all seemed to turn out well.
You can get gut flora that is specifically designed for birds and lizards. My present very high tech herp vet gives me a product called Probicin paste in a syringe, which is balanced for birds, but the vet says is great for lizards. So that is what I use now. Maybe your vet can get some.
Roger