The contents within the virtual disk (.vmdk) remain the same, no matter how it is attached to the VM.
The main question is, if there's a reason why it has been configured as independent? Some configurations (e.g. MS Cluster) may need special configurations.
In some cases independent-persistent mode is used to explicitly exclude virtual disks from being snapshotted, to avoid possible timing issues.
If this is a default virtual disk, and no shared access is required, you basically shouldn't have issues with changing the setting (except for afore mentioned timing things), to have it included in the backup.
André
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