rsync is a good choice for moving data between machines (for linux). Be very careful about how you rsync, if you have credentials sitting on the host machine what's to stop them from using them to destroy the target machine too?
Make sure your rsync from the TARGET machine, and only a limited set of people have access to the target machine.
You could look into external hosting providers that do backups for you, and keep the credentials for that account with only a limited set of people.
The other thing you could look into is scripting something with AWS that takes a snapshot of the EC2 and saves it or ships it off to another AWS account or to a special IAM user that only a limited set of people have access to. If you can get your data into S3, you could write your own services to pull it down into another AWS account, or a local computer or another hosting provider etc.
Another useful thing is to not give employees access to delete data from an AWS account unless the need it. This may or may not be practical depending on your situation.