The swollen toe does sound like an infection. Rabbits are really prone to infection and abscesses that contain very thick pus. A vet can drain the abscess for you and/or give antibiotics to kill the bacteria in it. They are such cuties I hope they come through ok, but I definitely think you should take them to the vet, especially where one is swollen. Neosporin w/o painkiller is good, like angelnsnuffy said. Also, the toe injury sounds like it could have been caused by a wire floor. I can't imagine how they could get injured anywhere else unless there was biting involved (either by another rabbit or some other animal). I guess they could have fur mites or fleas and may have scraped the skin raw where the fleas are bothering them.
to keep them from licking off the cream, give them a treat or pet them immediately after putting it on so they don't have a chance to get at it right away. Occupying them for a few minutes will allow it to soak into the wound.