How to Use Linux to Clone Windows Hard Drive to SSD

Want to migrate Windows to an SSD using Linux? This guide covers the best cloning tools and step-by-step instructions to ensure a smooth transfer.

Lily

By Lily Updated on April 23, 2025

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Why use Linux for cloning?

When it comes to cloning a Windows hard drive to an SSD, Linux offers several advantages over traditional Windows-based solutions.

1. Free and Open-Source Tools

Unlike some Windows cloning software that requires paid licenses, Linux provides powerful disk cloning utilities for free. Tools like Clonezilla, dd, Partclone, and GParted are open-source.

2. No Need to Boot Into Windows

A Linux live USB allows you to clone your Windows drive without booting into Windows itself, reducing the risk of data corruption or file conflicts that can occur when cloning an active system.

3. Works Across Different File Systems

Linux-based cloning tools support a wide range of file systems, including NTFS (used by Windows), FAT32, exFAT, and even Linux-specific formats like ext4. This flexibility ensures compatibility, whether you're cloning a Windows-only drive or a dual-boot system.

How to clone Windows HDD to SSD using Linux tool – Clonezilla

Clonezilla is one of the most powerful and efficient Linux-based disk cloning tools. It allows you to clone an entire Windows hard drive (HDD) to a solid-state drive (SSD) quickly and securely. Here’s how to use it:

Step 1: Prepare for Cloning

Before you begin, follow these preparation steps:

Backup Important Data – Although Clonezilla is reliable, unexpected issues can occur. Ensure you back up important files before proceeding.

Connect New SSD – You can connect it internally in a free drive bay or externally via a SATA-to-USB adapter or a hard drive enclosure.

Create a Clonezilla Bootable USB

  • Download the latest Clonezilla Live ISO from the official website.
  • Use a tool like Rufus or Balena Etcher to create a bootable USB drive.

Step 2: Boot Clonezilla Live

1. Insert the Clonezilla bootable USB into your PC.

2. Restart your computer and enter the BIOS/UEFI settings (usually by pressing F2, F12, DEL, or ESC at startup).

3. Set the boot order to prioritize the USB drive and boot into Clonezilla.

Change Boot Order

Step 3: Start the Cloning Process

1. Select Clonezilla Live and choose your preferred language and keyboard layout.

2.Select Start Clonezilla > device-device > Beginner respectively.

Beginner Mode

3. Select disk_to_local_disk for HDD to SSD cloning.

Disk to Local Disk

4. Select the HDD as the source disk and SSD as the target disk.

5. Choose advanced options:

  • Enable -sfsck (skip filesystem check)
  • Enable -k0 (copy source partition table)

Skip Checking

6. Select the action to perform after the disk cloning is done. By default we will choose later, but if you have decided, you can choose to reboot or poweroff your computer.

Action After Cloning

7. Before doing the real cloning, Clonezilla will ask for confirmation. Type y twice to start cloning. When the cloning process is done, press Enter to continue.

8. Choose Poweroff to shut down your computer. Now your SSD is ready to be used.

Step 4: Finalizing and Booting from SSD

1. Replace the old HDD with new SSD (if your computer has only one hard drive bay).

2. Enter BIOS again and set the SSD as the primary boot drive.

3. Boot into Windows and verify that everything is working correctly.

Easier way to clone Windows hard drive to SSD

As you see, it requires a bit of technical know-how to use Linux to clone Windows disk to SSD. If you prefer a simpler, more user-friendly solution, AOMEI Cloner is an excellent alternative.

💛 Easy-to-Use Interface: Unlike Clonezilla’s command-line setup, AOMEI Cloner features a straightforward GUI, making it perfect for beginners.
💛 Quick & Simple Cloning: Clone your entire hard drive or just the C drive to an SSD in just a few clicks—no technical expertise required.
💛 Smart Partition Adjustment: Automatically resizes partitions when cloning a larger drive to a smaller drive (vice versa), ensuring optimal space utilization.
💛 Optimized SSD Performance: Built-in SSD alignment enhances speed and extends the lifespan of your SSD, a crucial feature missing in Clonezilla.

Want to have a try? Download AOMEI Cloner now!

Easiest hard drive clone software for Windows PC & Server

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Then follow the instructions below to clone HDD to SSD via AOMEI Cloner:

1. Connect your new SSD to the computer via SATA or USB (if using an external adapter). Ensure Windows detects the SSD.

2. Open AOMEI Cloner and go to Clone > Disk Clone.

Disk Clone

3. Select your Windows HDD as the source disk and choose the SSD as the destination disk.

Choose Source Disk

4. Check the SSD Alignment option to improve the new SSD’s performance and lifespan. Finally, click Start Clone to begin HDD to SSD cloning.

Start Clone

Tip: To clone HDD to SSD without booting Windows, you can click Tools > Create Bootable Media to make a bootable USB. Then boot from the USB to perform disk clone in WinPE.

Create Bootable Media

FAQs about Linux cloning Windows disk to SSD

1. Is Clonezilla the best Linux tool for cloning a Windows disk?

Clonezilla is one of the best free Linux-based cloning tools due to its speed, reliability, and ability to handle different file systems like NTFS, FAT32, and exFAT. However, it has a text-based interface, which may be challenging for beginners.

2. How long does it take to clone a Windows HDD to an SSD using Linux?

The time depends on factors like disk size, cloning method (sector-by-sector vs. file-based), and SSD speed. Typically, a 500GB drive takes around 30–60 minutes using Clonezilla.

3. Does Linux cloning affect Windows activation?

No, cloning does not impact Windows activation as long as the hardware (motherboard, CPU, etc.) remains the same. However, if you change multiple components, Windows may require reactivation.

Verdict

This article guides you through how to use Linux to clone Windows hard drive to SSD with an open-source tool Clonezilla. While cloning a Windows disk using Linux is cost-effective and powerful, it can be complex for beginners. A more user-friendly alternative is AOMEI Cloner, which offers a graphical interface with versatile cloning options. Why not give it a shot?

Free Download Win 11/10/8/7/Server
Secure Download
Lily
Lily · Editor
Lily Green joined AOMEI in 2018 and has since become a professional in the areas of data protection and data transfer. She is committed to helping users protect their precious computer data and troubleshoot Windows system errors. She consistently stays vigilant about the latest trends in technology, guaranteeing that the given information aligned with the ongoing advancements in the field.