I’ve learned to stop worrying and love the potion bombs. I did think it was a bit weird to begin with, but on reflection I don’t think it does much harm, given throwing a potion takes an action and therefore has a significant opportunity cost, plus the HP recovered is low for common potions, so don’t see it as particularly unbalancing. I very rarely find throwing a potion is the best choice for my party, or the enemy.
But it does give a bit more party composition flexibility, by giving an option for healing other party members for classes that don’t have healing spells. I was able to use them a couple of times to avoid TPKs when I was running without healers, when otherwise I’d have ended up reloading, which would have been a pain, and actually I kind of liked the option of throwing a potion as a last ditch, desperate attempt to stay alive.