This is how I did it on my 589 Pro (QTS 4.x) and 873e (QTS 5.x) ...
Just keep in mind: Be patient.
This will go rather slow. For example detecting that a disk is removed, and later a new disk has been inserted, and rebuilding the RAID volume, it all takes time ...
(FYI: I'm not that patient, so I have te remind myself about this whenever I do this as well 😉 )
You do not need to shut down your QNAP but you will need te replace a disk and have it rebuild the RAID volume.
Replace the second disk after that rebuild has completed.
The basic steps are:
1. While the system is running, remove only ONE disk.
2. Wait until QTS reports this disk is missing (it will beep and it should show in the web interface)
3. No place ONE new disk in the system.
Your QNAP will now inform you that a new disk has been placed (takes a minute to detect that) and the volume needs to be rebuild (takes a minute or so before you actually see this in the web interface). Considering that you have 3Tb disks: this may take a few hours.
I cannot stress this enough: be patient, replace one disk, rebuild the RAID volume, then replace the next diks etc.
You can find some QNAP reference materials here.