@JG, Thanks for the reply. From your description, it seems the Endpoint Protection workload is still on Configuration Manager. Based as I know, the device configuration workload includes settings that you manage for devices in your organization. Switching this workload also moves the Resource Access and Endpoint Protection workloads. Please check if the Device configuration is switched.
https://learn.microsoft.com/en-us/mem/configmgr/comanage/workloads#device-configuration
Meanwhile, to double confirm which workload has been switched on the affected device, we can go to Intune portal, Devices->find one affected device and check the Intune managed workloads on it.
Please check the above information and if there's any update, feel free to let us know.