Torpex1942, welcome aboard!
The five files you scanned are the ones you decided to use the last time with XP, as they are the only ones to get rid of the star force protection system.
Ubisoft didn't want to invest in new drivers for Vista and later, so they "half-officially" support the copy protection avoidance.
http://forums.ubi.com/showthread.php...D-Drive-Forums
The files do change certain aspects of the regular behaviour of searching for the copy protection with the DVD present - like a virus would change that behaviour.
Your anti virus scanner is doing its job, but the files are no virus at all, just the changed originals with a modified behaviour.
They don't do any creepy things but let you play the game without DVD.
Deinstall your game again - the protection drivers may still rest on your hard drive.
Remove the protection drivers with the tool provided by star force.
http://www.star-force.com/support/drivers/
Clean the registry - to do so, install and run CCleaner.
Reinstall the game - but not in the default path. Use C:\games\ or whatever you like.
Don't start the game, or the drivers will reinstall too. Don't install or run anything else from the DVD.
Patch the game 1.4b - then overwrite the five files with the modified ones.
(we shall not post direct links - but with or without a little Spanish you may be able to find a reliable source at this forum:
http://www.24flotilla.com/foro/viewt...p?f=13&t=42826 
)
Get you the latest DirectX 9.0c from Microsoft and install it.
Now you're good to go without the DVD necessary in your drive. Mod to your liking.
You may want to do all installations with administrator rights and reboot after registry cleaning.
This works on Win 7 too.
We all do have different mod soups and it is up to you to find the one you are interested in. Go with HW3's advice and then see what you find with the download section here at Subsim.