How do I stop Mac creating files on Windows server creating hidden files?

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This happens in part with some Mac files that contain both a resource and a data fork. Windows doesn't know how to handle these files and breaks them apart. Also, Mac OS creates certain hidden files used by the Finder that also get transferred but are no longer hidden on Windows because Windows does not recognize the "." preceding a filename as the Unix shorthand for "invisible."

There are a number of free utilities you will find at VersionTracker or MacUpdate that can prevent this and the hidden files from appearing on the Windows drive.

Zipping files before transfer will also prevent the problem from occurring.

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I can't tell you how to prevent this in the first place, but I can explain to you what happens here: You are saving files to a filesystem that doesn't understand resource forks. This would be your Windows-Server accessed over the network via SMB. On such filesystems OS X automatically creates (and tries to read when opening) these ._filenames to store the information.
Normally these files don't show up in Windows unless the user chooses to view hidden/system files in Explorer.

If interested, here's more about it: http://en.wikipedia.org/wiki/Resource_fork

What Kappy said! The one that gets the best reviews by users is called BlueHarvest. It's cheap and can automatically prevent OS X from creating its droppings in a Windows environment.

http://zeroonetwenty.com/blueharvest/