If she seems uncomfortable and you think the gas drrops will help, it doesn't usually hurt to try them.
You hopefully shouldn't see any more dead worms after the 2nd dose. It's mostly to make sure they are all gone. However, if you were to see dead worms in the poop after the 2nd dose, you may want to consider requesting your vet let you do the 5 day consecutive dosing, because seeing more worms means your rabbit did manage to get reinfected, and you would need to do a more aggressive dosing routine like the 5 day to stop if from happening again.