There's no problem at all, they're working as intended. Once you use 100 of each of the potions, they can't be used any more. They level up a Beginner skill, which doesn't level up past 100. The message they give you is just a little weird, it should probably say something like "You've consumed all the Bebe's Strengthening Potions you can" or something
Edit: Also worth noting that the skill resets if you die, so it's still worth keeping some pots around if you're still below your first 150. You'll need some if you're gonna kill VL
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Edit: Also worth noting that the skill resets if you die, so it's still worth keeping some pots around if you're still below your first 150. You'll need some if you're gonna kill VL