Wait until you have finished cycling, then you can rinse your filter cartridges out ina container of tank water. Do this every other water change, or maybe alternate cartridges every change (if you have more than one in your filter). Replacing them all out will loose some of your bacterial colony. If you do need to replace one thats falling apart, put the new one in the filter for awhile, so you can get some goodies growing on it, before you toss the old one. Carbon is useful for removing toxins but otehrwise unnessesary, but not harmful.