Console antivirus can not work like common antivirus that work real time and anytime while operating system work. It has to be started by user. Most of antivirus has common weakness that can not access any file that protected by the the operating system.
One of the solution for complete scan without blocked by the system is by using the other system. I offer you solution by using bootable windows on CD. One of them is Mini Windows Xp. Using Mini Windows Xp will let your antivirus access all files on your drive, without any blocking action from original operating system.
You can download Mini Windows Xp or using Mini Windows Xp on Hirens Boot CD, or you can also using Windows Live on CD, you can also boot via USB drive installed Hirens Boot CD or Windows Xp Live on CD. All of those stuff can be downloaded from 4shared or any other file hosting and sharing sites.
First Step:
Copy your McAfee antivirus folder that you have extracted to your hard drive. Insert your mini Windows bootable CD to your computer's optic drive. Restart your PC. Go to BIOS to set the boot sequence devices make sure that your optic drive has higher priority than your harddisk. Save your setting on BIOS and let the PC boot the Windows on CD.
Second Step :
When Windows on CD or USB device has finished booting, make sure you have enough virtual memory to run the antivirus. To set the virtual memory, open the windows explorer then right click on My Computer Icon, click properties. On properties window, choose the advance tab than click setting button on perfomance menu. On performance window choose the advance tab again then click the change button, and then click on custom size radio button, fill the blank initial size and maximum size field than click set.
Third Step :
Run the SCAN.exe as i wrote before. Blocked files will be accessed by the scanner. This method will give you better result of virus removing because the files that no more blocked by your default operating system.