aka the "nuke from orbit option".
1. disconnect from network.
2. backup essential user files not stored on network to USB
3. low level HD and partition wipe
4. Re-image from last months desktop image
5. Scan USB stick in triplicate on quarnatine machine
6. Restore backups
7 (optional): Reimage desktop ghost with Java removed...
Once initial detection was made, this option was probably quicker, simplier and you won't be worrying about whether you got everything for weeks afterwards.