What you trying to do with only changed files is a bad idea on only 2 backup media!
Any backup program can do a "changed only" backup. That is called incremental backups.
An Incremental backup needs to have a FULL Backup once each backup cycle.
So a normal Incremental backup is 1 Full and Four days of incremental. There must always be a Full backup because some files may not change for weeks. With an Incremental only the changed files are backed up. If you do not have a full backup you will lose files.
With a CD or DVD rewriteable disk you should backup of all the files that can fit on the 1 disk.
Like the accounting system should be backed up everytime it gets used.
Wordprocessing and speadsheet docs can be backed up every other day or only once per week.
The frequency of the backups you do are determined by how much work you can afford to do over if you have to restore.
Like if you use MYOB every day, and backup once per week, the worst case if you have to restore from a week ago and do 1 whole weeks work over again!