Trojan:Java/Agent!MSR is a type of malware that exploits certain vulnerabilities on the computer to execute a malicious Java script file. Once inside and active on the computer, this threat can establish a remote connection and perform data-gathering functions on the computer. It can spy on computer details like the installed operating system, network details, security settings, and more. Trojan:Java/Agent!MSR can perform other malicious actions as commanded by the remote attacker as long as it is persistently operating and the communication towards the remote server is active. Therefore, computer users must act at once to remove this malware by thoroughly scanning the computer with an effective antivirus program.

Illustration for Trojan:Java/Agent!MSR

How does it infect the computer?

Trojan:Java/Agent!MSR uses stealthy techniques to get inside the computer through a malicious Java script file. The actors behind this threat are said to be utilizing a variety of distribution techniques, and a wide array of resources via the internet. Hence, the most common ones include “malvertising” (malicious advertising), where the file is disguised as a software update or necessary tools that users must download in order to watch a video, listen to music, or play an online game.

Software piracy is also observed as a channel that attackers are using in deploying Trojan:Java/Agent!MSR. In-demand freeware or commercial software is being modified to include the malware code so that it installs alongside the application.

How does this malware operate?

Please do note that Trojan:Java/Agent!MSR is a heuristic detection for a threat that uses Java script file in order to infect a computer. Its operation normally depends on the design of the variant that infects the system. However, it is commonly associated with data-stealing actions once they are operational. Trojan:Java/Agent!MSR can gather information like computer settings, Windows version, networking setup, installed programs, and security settings.

The existence of Trojan:Java/Agent!MSR on the computer is a real threat to the user’s privacy and security. Aside from data gathering, it can elevate its payload to act as a backdoor. When that happens, the remote attacker may gain full access to the compromised system and do any of the following malicious actions:

  • Steal sensitive information like usernames and passwords.
  • Drop and execute another threat.
  • Deactivate security programs and alter the firewall settings.
  • Infect the internet browser program to execute redirects.


Antivirus applications, especially Microsoft antivirus programs, are able to identify this threat. As a result, computer users may encounter a warning that their computer is infected with Trojan:Java/Agent!MSR. Always make sure that antivirus applications are updated to continuously detect this malware and keep protecting the computer against similar attacks.

How to remove Trojan:Java/Agent!MSR?

To totally remove Trojan:Java/Agent!MSR from the computer and get rid of relevant viruses and trojans, please execute the procedures as stated on this page. Make sure that you have completely scanned the system with the suggested malware removal tools and virus scanners.

Step 1 : Scan the PC with Combo Cleaner for Windows

Combo Cleaner is a trusted computer security and optimization tool equipped with a powerful virus and malware detection engine. This program can get rid of computer virus like Trojan:Java/Agent!MSR through this procedure.

1. Download the application from the following page:

2. Save the file to your preferred location.

3. Double-click the downloaded file CCSetup.exe and install with the default settings.

4. At the end of the setup process, click Finish to run Combo Cleaner.

5. The tool will update the database file; please wait for this process to complete.

6. To begin checking for threats like Trojan:Java/Agent!MSR, click on the Start Scan button. Wait for this scan to finish.

Screenshot of Combo Cleaner PC

7. At the end of the scan process, click on Remove all threats to delete Trojan:Java/Agent!MSR malware, including all malicious objects from the computer.

To fully optimize the features of antivirus and privacy scanners, users may have to upgrade to the premium version.

Please continue with the succeeding removal procedures if you are comfortable manually getting rid of the computer virus and malicious items linked to it.

Step 2 : Start Windows in Safe Mode With Networking

The method of running Windows in Safe Mode before running a virus scan is effective in getting rid of Trojan:Java/Agent!MSR. This process can prevent most viruses and malware from loading, making it easier to detect and remove them.

1. On the Windows Search bar, please type msconfig.

Screenshot of Win 11 Search

2. Select and open System Configutation on the list of found results.

3. Once you are in the System Configuration window, go to the Boot tab.

Screenshot of Msconfig Win 11

4. Under the Boot Options area, please check Safe Boot so that it starts in Safe Mode after restarting.

5. Next, select Network. This will allow Windows to boot in Safe Mode with Networking.

6. Lastly, click on Apply and OK to save the changes.

7. Please restart Windows.

Do not forget to restore the normal boot process of Windows after running the virus scan. Simply repeat the method above, and this time, uncheck the Safe Boot option to run Windows normally.

Step 3 : Run Sophos Home Virus Scanner

To remove Trojan:Java/Agent!MSR automatically, scanning the computer with this powerful virus and malware removal tool is recommended. This scanner does not just uncover known threats like viruses or malware; it is also effective in discovering harmful files associated to Trojan:Java/Agent!MSR.

1. Please click on the link below to download the program.

2. After downloading, locate the file SophosInstall.exe in the Downloads folder.

3. Install by double-clicking on the file.

4. If it prompts "Do you want to allow this app to make changes on your device?" please click Yes.

5. Next, it will display the Terms and Conditions page. Click the Install button to begin.

Screenshot of Terms by Sophos Home

6. Run the installation with the default settings. Please note that an internet connection is required in order to download important updates.

7. After finishing the installation, you must login to the dashboard. If you already have a Sophos account, please login. Otherwise, please enter your details and click on the Create Account button.

8. Once you are in the Sophos Home console, click the Scan button to start checking the computer for Trojan:Java/Agent!MSR components.

Screenshot of Sophos Home

9. Scanning may take a while; please wait for this process to finish.

10. After scanning the computer, Sophos Home will start cleaning or deleting files infected with Trojan:Java/Agent!MSR.

11. You may now close Sophos Home. The computer is now free from Trojan:Java/Agent!MSR, as well as associated malware and viruses.

After executing the above instructions, Trojan:Java/Agent!MSR should have been completely removed from the computer. If there are still signs of infection or the computer is displaying unusual behaviors, please continue with the remaining procedures.

Another alternative for Windows 10/11 users is to scan the computer with Microsoft Defender Offline. This will run a virus scan in the recovery environment.

Step 4 : Double Check with Windows Security Apps

Microsoft Windows has a built-in security application that you can use to double-check if your computer is still infected with Trojan:Java/Agent!MSR. For Windows 10/11 users, please run Windows Security.

Windows 10 / 11 Instructions:

Windows Security is a free tool that was built to help you remove Trojan:Java/Agent!MSR, viruses, and other malicious items from Windows 10/11 systems. Follow these procedures to scan your computer with the tool:

1. Tap or click the Search charm and search for Windows Security

2. Click Open to run the program.

Screenshot of Win 11 Search

3. On the Dashboard, click Virus and threat protection from the sidebar.

Screenshot of Win 11 Virus Protection

4. On the right panel, click on Scan Options to see different levels of checking the computer.

5. Next, please select Full Scan button.

Screenshot of Full Scan Win 11

6. Lastly, click on the Scan now button to start scanning for the presence of Trojan:Java/Agent!MSR. The process may take a while to complete.

7. After the scan, Delete/Quarantine identified threats, whether they were relevant to Trojan:Java/Agent!MSR or not. You may now restart Windows to complete the virus removal process.

For Windows 8.1 and Windows 7, you can scan the computer for free with the Microsoft Malicious Software Removal Tool (MSRT 64-Bit). It is a stand-alone virus scanner tool that targets prevalent malware groups.

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