Complete guide to scanning and removing malware on Windows with Malwarebytes and other tools

Last update: 11/09/2026
Author Isaac
  • Malwarebytes stands out as a powerful solution for cleaning infected computers thanks to its advanced scanning engine and real-time protection layers.
  • There are several free and native Microsoft alternatives that allow you to keep your system protected against viruses, ransomware, and spyware.
  • Combining passive detection tools and active scans is the most effective strategy for eradicating persistent threats.

Laptop displaying the text CYBER SECURITY in red on a black background, representing computer security.

Having a slow computer or experiencing pop-up windows appearing out of nowhere is a nightmare any of us can face. In today's digital world, protecting our operating system isn't a luxury, but a basic necessity to prevent our personal information and money from falling into the hands of cybercriminals.

To combat these threats, there are tools specifically designed to track and remove any trace of malware. From the well-known Malwarebytes to the options already installed in Windows, there are multiple ways to keep your PC running smoothly and ensure that no infection will ever cause problems again.

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All about Malwarebytes: a heavyweight against malware

Close-up of a cybersecurity professional operating a laptop with a technology monitoring dashboard.

If you're looking for a tool that doesn't mess around, Malwarebytes is probably one of the most robust options for Windows. It's software specialized in detecting and eliminating unwanted programs , from classic viruses to the dreaded ransomware and so-called PPPs (Potentially Dangerous Programs).

To start using it, simply go to their official website and download the free version. The best part is that they offer a free 14-day Premium trial license , which lets you take advantage of advanced features like phishing protection, real-time malware detection, and persistent malware removal on Windows . After that period, you can continue using it for occasional scans, although you'll lose the active protection.

Installing it is incredibly easy; you simply choose the language and the folder where you want the program to reside. For it to be truly effective, it's essential to keep the database updated . Although the program does this automatically, you can always force an update search by clicking the gear icon in the "About" section, ensuring that the antivirus recognizes the latest threats.

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Layers of security and passive protection

Computer security analyst using malware detection software on a laptop and smartphone.

Malwarebytes not only cleans, but also monitors. Its web protection acts as a barrier, cutting off connections to malicious sites before any harmful scripts can infiltrate your hard drive, functioning similarly to a firewall.

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Furthermore, it features a system to prevent malware from entering through physical means, such as an infected USB drive. When it detects something unusual on a USB drive, the software sends the file directly to quarantine , preventing it from running. This is vital if you frequently connect devices from copy shops or other users.

How to perform deep cleaning and eliminate risks

Person analyzing digital security data on a computer screen with technological lighting.

The strength of this tool lies in its search engine. By default, it performs an opportunistic daily scan, but you can launch a much more thorough custom scan . In the advanced options, you can check the box to search for rootkits or detect fileless malware , ensuring that no corner is left unchecked.

When the program finds something, it doesn't delete it indiscriminately, but instead sends it to the "Quarantine" section. This is a safety measure in case of a false positive. If the antivirus detects, for example, a Windows activator (HackTool), it will give you the option to read more about the risk on its blog so you can decide whether to permanently delete it or keep it at your own risk.

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Other free alternatives to protect your PC

While Malwarebytes is great, there are other top-tier programs that can help. It's important to remember that you shouldn't have two antivirus programs running at the same time, as they can conflict with each other and potentially miss threats.

  • Bitdefender: Very lightweight and award-winning for its efficiency, ideal for equipment that doesn't have much power.
  • Avira and Avast: Two giants that offer very solid free versions with clear notifications about the system status.
  • Panda: It stands out for being very simple and having a game mode so that the PC doesn't slow down while you play.
  • AVG and eScan: Versatile options that allow you to clean your system of spyware and adware at no cost.

If you prefer not to install anything external, Microsoft's native Windows Defender has evolved considerably. To use it, go to "Virus & threat protection" and run a quick scan, or a full scan if you suspect something is lurking deep within your system.

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Windows' secret weapon: MSRT

Few people know that Windows includes a hidden tool called the Microsoft Software Removal Tool (MSRT). It's not a real-time antivirus, but a scanner that you have to activate yourself. To launch it, simply press Windows + R and type the command 'mrt'.

This tool focuses on the most common malware families and lets you choose between a quick scan, a full scan, or a custom scan to check a specific folder you just downloaded that seems suspicious. It's the perfect complement to Windows Defender when you need a quick second opinion.

Maintaining the security of our computer involves combining common sense with the use of powerful tools. Whether taking advantage of Malwarebytes' cleaning capabilities, using the free options from Bitdefender or Panda, or utilizing Microsoft's built-in resources like Defender and MSRT, the key is to act proactively and perform regular scans to ensure our digital lives remain secure and free from intruders.

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