Hola y gracias nuevamente por vuestra rapida respuesta,

He seguido todos los pasos uno a uno y he obtenido muy buenos resultados.
Por si acaso he repetido por segunda vez todos los pasos que me indicasteis y solo tengo una duda, al ejecutar vundofix se creo una carpeta con unos backups de los archivos infectados, eso he de eliminarlo?

Parece que aun queda algo pero el rendimiento de la maquina es mucho mejor ahora.

Os pego el report del antivirus online para ver que se puede hacer con lo que queda:

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KASPERSKY ONLINE SCANNER REPORT
Wednesday, December 13, 2006 11:41:44 PM
Operating System: Microsoft Windows XP Professional, Service Pack 1 (Build 2600)
Kaspersky Online Scanner version: 5.0.83.0
Kaspersky Anti-Virus database last update: 13/12/2006
Kaspersky Anti-Virus database records: 250556
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Scan Settings:
Scan using the following antivirus database: extended
Scan Archives: true
Scan Mail Bases: true

Scan Target - My Computer:
A:\
C:\
D:\
E:\
F:\

Scan Statistics:
Total number of scanned objects: 47881
Number of viruses found: 2
Number of infected objects: 3 / 0
Number of suspicious objects: 0
Duration of the scan process: 03:03:22

Infected Object Name / Virus Name / Last Action
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\02dd_File_Monitoring_eventlog.rpt Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\02e0_Web_Monitoring_eventlog.rpt Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\detected.idx Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\detected.rpt Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\eventlog.rpt Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Kaspersky Lab\AVP6\Report\report.rpt Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Microsoft\Network\Downloader\qmgr0.dat Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Microsoft\Network\Downloader\qmgr1.dat Object is locked skipped
C:\Documents and Settings\All Users\Datos de programa\Symantec\LiveUpdate\2006-12-13_Log.ALUSchedulerSvc.LiveUpdate Object is locked skipped
C:\Documents and Settings\David\Configuración local\Archivos temporales de Internet\Content.IE5\index.dat Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\ApplicationHistory\hpqimzone.exe.12eac55c .ini.inuse Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\administrativeInfo.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\albumImagesTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\albumImagesTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\albumTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\albumTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\CB_Server_Errors.txt Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\EXIFTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\EXIFTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\imageTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\imageTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\imageTable.fpt Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\keywordImagesTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\keywordImagesTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\keywordTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\keywordTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\managedFolderTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\pathnameTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\pathnameTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\propertiesTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\propertiesTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\ROFImagesTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\ROFImagesTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\ROFTable.cdx Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\HP\Digital Imaging\db\ROFTable.dbf Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat Object is locked skipped
C:\Documents and Settings\David\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat.LOG Object is locked skipped
C:\Documents and Settings\David\Configuración local\Historial\History.IE5\index.dat Object is locked skipped
C:\Documents and Settings\David\Configuración local\Historial\History.IE5\MSHist0120061213200612 14\index.dat Object is locked skipped
C:\Documents and Settings\David\Configuración local\Temp\hpodvd09.log Object is locked skipped
C:\Documents and Settings\David\Configuración local\Temp\ngylorww.dll Infected: Trojan-Spy.Win32.VBStat.h skipped
C:\Documents and Settings\David\Configuración local\Temp\tbkxidmo.dll Infected: Trojan-Spy.Win32.VBStat.h skipped
C:\Documents and Settings\David\Configuración local\Temp\_hphtra07.log Object is locked skipped
C:\Documents and Settings\David\Configuración local\Temp\~DFE0DF.tmp Object is locked skipped
C:\Documents and Settings\David\Configuración local\Temp\~DFE862.tmp Object is locked skipped
C:\Documents and Settings\David\Cookies\index.dat Object is locked skipped
C:\Documents and Settings\David\Datos de programa\Roxio\MediaManager8\Album.ldb Object is locked skipped
C:\Documents and Settings\David\Datos de programa\Roxio\MediaManager8\Album.psod Object is locked skipped
C:\Documents and Settings\David\ntuser.dat Object is locked skipped
C:\Documents and Settings\David\ntuser.dat.LOG Object is locked skipped
C:\Documents and Settings\LocalService\Configuración local\Archivos temporales de Internet\Content.IE5\index.dat Object is locked skipped
C:\Documents and Settings\LocalService\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat Object is locked skipped
C:\Documents and Settings\LocalService\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat.LOG Object is locked skipped
C:\Documents and Settings\LocalService\Configuración local\Historial\History.IE5\index.dat Object is locked skipped
C:\Documents and Settings\LocalService\Cookies\index.dat Object is locked skipped
C:\Documents and Settings\LocalService\ntuser.dat Object is locked skipped
C:\Documents and Settings\LocalService\ntuser.dat.LOG Object is locked skipped
C:\Documents and Settings\NetworkService\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat Object is locked skipped
C:\Documents and Settings\NetworkService\Configuración local\Datos de programa\Microsoft\Windows\UsrClass.dat.LOG Object is locked skipped
C:\Documents and Settings\NetworkService\ntuser.dat Object is locked skipped
C:\Documents and Settings\NetworkService\ntuser.dat.LOG Object is locked skipped
C:\VundoFix Backups\ssqpo.dll.bad Infected: not-a-virus:AdWare.Win32.Virtumonde.fj skipped
C:\WINDOWS\Debug\PASSWD.LOG Object is locked skipped
C:\WINDOWS\SchedLgU.Txt Object is locked skipped
C:\WINDOWS\SoftwareDistribution\ReportingEvents.lo g Object is locked skipped
C:\WINDOWS\Sti_Trace.log Object is locked skipped
C:\WINDOWS\system32\config\AppEvent.Evt Object is locked skipped
C:\WINDOWS\system32\config\default Object is locked skipped
C:\WINDOWS\system32\config\default.LOG Object is locked skipped
C:\WINDOWS\system32\config\SAM Object is locked skipped
C:\WINDOWS\system32\config\SAM.LOG Object is locked skipped
C:\WINDOWS\system32\config\SecEvent.Evt Object is locked skipped
C:\WINDOWS\system32\config\SECURITY Object is locked skipped
C:\WINDOWS\system32\config\SECURITY.LOG Object is locked skipped
C:\WINDOWS\system32\config\software Object is locked skipped
C:\WINDOWS\system32\config\software.LOG Object is locked skipped
C:\WINDOWS\system32\config\SysEvent.Evt Object is locked skipped
C:\WINDOWS\system32\config\system Object is locked skipped
C:\WINDOWS\system32\config\system.LOG Object is locked skipped
C:\WINDOWS\system32\drivers\dtscsi.sys Object is locked skipped
C:\WINDOWS\system32\drivers\fidbox.dat Object is locked skipped
C:\WINDOWS\system32\drivers\fidbox.idx Object is locked skipped
C:\WINDOWS\system32\drivers\fidbox2.dat Object is locked skipped
C:\WINDOWS\system32\drivers\fidbox2.idx Object is locked skipped
C:\WINDOWS\system32\drivers\sptd.sys Object is locked skipped
C:\WINDOWS\system32\drivers\sptd6589.sys Object is locked skipped
C:\WINDOWS\system32\h323log.txt Object is locked skipped
C:\WINDOWS\system32\wbem\Repository\FS\INDEX.BTR Object is locked skipped
C:\WINDOWS\system32\wbem\Repository\FS\OBJECTS.DAT A Object is locked skipped
C:\WINDOWS\Temp\JET92D9.tmp Object is locked skipped
C:\WINDOWS\Temp\~DFF0B2.tmp Object is locked skipped
C:\WINDOWS\wiadebug.log Object is locked skipped
C:\WINDOWS\wiaservc.log Object is locked skipped
C:\WINDOWS\WindowsUpdate.log Object is locked skipped

Scan process completed.