STEP-BY-STEP GUIDE (2026)

Use WinPE to Clone Your Windows Boot Drive

  1. Download WinPE image
  2. Restore the image to a USB drive with MultiDrive
  3. Boot from the USB drive
  4. Clone your boot drive in MultiDrive
  5. Verify and boot from the target copy

Cloning your boot drive sometimes resembles trying to repair a car engine while driving down the highway. While MultiDrive clones all drive blocks (sectors) at the lowest native level, Windows constantly locks system files and runs background processes. This can occasionally lead to the issue:

  • Target copy doesn't boot
  • Incomplete data in databases or applications.
  • Other inconsistencies in the target copy.

The Solution: MultiDrive WinPE

We created a bootable WinPE environment with MultiDrive pre-installed.

With it, you can run MultiDrive from a USB stick while your main Windows system is completely stopped. When it boots, it automatically opens MultiDrive app in GUI, allowing to quickly start cloning.

Step 1: Download WinPE image

Our WinPE image is available here: Download WinPE with MultiDrive

Step 2: Restore WinPE image to a USB drive

  1. Plug any USB drive of 2GB or larger into your computer.
  2. Launch MultiDrive and click Restore.
  3. Select the downloaded WinPE ZIP file as Source and your USB drive as Target.
  4. Click Start

Step 3: Boot from USB drive

  1. Plug the USB drive into the PC containing the source drive you want to clone.
  2. Restart the PC and enter the Boot Menu (usually F12, F8, or Del, depending on your motherboard manufacturer).
  3. Select the USB drive to boot.

Note: Secure Boot may block WinPE. If the USB doesn't appear in Boot Menu or fails to start, enter BIOS Setup and temporarily disable Secure Boot. Re-enable it after cloning (Step 4);

WinPE image with MultiDrive after boot

Step 4: Clone your boot drive

  1. MultiDrive is open.
  2. Select your internal Windows drive as Source.
  3. Select your another drive as Target.
  4. Double-check that your Source is your Windows drive, not vice versa.
  5. Click Clone.

Step 5: Verify and boot from the target copy

  1. Shut down and remove the original source drive (or change boot order).
  2. Boot from your cloned drive.
  3. If Windows boots successfully, you're done!
Attention: If the target copy doesn't boot

If the target copy doesn't boot, it may require one of the quick boot recovery procedures, such as rebuilding the boot configuration.

Please refer to the guide: Troubleshooting Cloned Drive Won't Boot

When regular cloning works fine

The WinPE image is specifically for cloning the drive Windows is currently running from.

You don't need WinPE for:

  • Cloning data drives (non-boot)
  • Creating backup images for archival
  • Non-Windows boot drives