Also for trojans and other malware there's ewido and a-squared - both are truly excellent freeware and highly recommended. I'm surprised they haven't been added to the guide already - if you test them out you'll know what I mean and that they should be added to the guide straight away.
When running them I'd run the scanners differently:
Switch off restore points
Safe mode
Winsock Fix
Bazooka - just to scan to see what we have - see approx numbers
CWshredder
Crap cleaner
Anti-virus
Microsoft anti-spyware
adaware
spy sweeper
ewido
a-squared
spybot
Also, if stuck for an anti-virus product to run or rather if yours hasn't been cutting it download a 30 day trial of Kaspersky - it's the absolute best of personal virus scanners (av-comparatives). That would help cut out alot of crap. Afterwards, ewido and a-squared should pick up alot of the extra crap.
If really loaded down with trojans Trojan Hunter and TDS-3 also do trial periods.
Don't forget to uninstall all these trial programs after.