If you want to be 100% certain that your secondary drives remain untouched, follow the rule:
Sometimes, users realize their files were only on the desktop (C: drive), which is wiped. Even if the secondary drives are safe, your primary user profile data is gone. How to Ensure "Exclusive" Wiping
Run the clean install on your lone remaining SSD. does clean install wipe all drives exclusive
Remove all USB thumb drives, SD cards, and external HDDs.
The short answer is , but with a very important "it depends" regarding how you configure the setup. The Short Answer: It Only Wipes What You Tell It To If you want to be 100% certain that
If you use the "Reset this PC" feature within Windows settings rather than a USB boot drive, you may see an option to "Clean all drives." If you toggle this on, Windows will wipe every connected disk.
When you perform a clean install using a USB boot drive, you eventually reach a screen asking, Remove all USB thumb drives, SD cards, and external HDDs
While the process is exclusive to the drive you select, human error is the biggest threat.