Clay,
   Do you have a System Restore point for a time just before you made these
'improvements?'  That would be the quickest and safest way to put you back
where you were before you did the cleaning.   Another thought, (I am not
familiar with the software you used to 'fix' your machine) is there a backup
of the files removed in the application you used?  Most of the good cleaning
and spyware/malware applications have a restore feature for just the
situation you have experienced.
   If you resort to the System Restore, be sure to pick the newest point
before the event that caused the issue.  Nice thing about SR points, they
are reversable!
`                                Heirloom, old and must go play with the
plasma cutter