[Security] 1.6.4 Security Vulnerability

[Reserector]

It's been awhile with no virus alerts, until today. I admit I have been putting off the 1.6.5 update. I want to know if this recent upgrade will make this problem go away, or do I need to fix this virus problem before continuing?
Here is what a forum member posted for me today:
I have replaced pretty much all php and js files with clean files from the last upgrade, plus the security fix. Changed my password on my server, also. Based on what keeps showing up, what files should I be checking or replacing?

[TheGarfield]

^
I can't see the uploaded attachment because it's on your website and I have to register to see attachments..

But YES, if you update your software to 1.6.5, you will get rid of the 1.6.4's security vulnerability..

[OttoMatta]

I'm not convinced it is. File verification turned up some similar issues today. Had to reinstall some files.