The file that contains initial data in is called "ncdata". You can set ncdata="/xxx/yyy.nc" in user_nl_cam to override the ncdata provided. It is important to note that ncdata files are specific for compset/grid/CAM version, so it would be good to start with the ncdata provided from your specific setup and create a copy of this file where you overwrite with the updated data that you want.
If you have further questions, there have been a number of bulletin board posts which talk about "ncdata". You can find them by using the search feature in the bulletin board.