This is good question for AC support.
In the past, once you got updated your databases ICD, CPT, med list, all your editing efforts were lost. The new databases would replaced the old ones.
Playing around with Beta 3.5 and ICD, CPT updated databases in my house, I noticed there is feature during the update that apparently will allow you to keep your edited codes, some sort of syncronization I belive.
However, I have not test it in my real practice so I am not sure how accurate this might be.