I am having SOME WHAT the same problem. I posted recently that MOST my files were disappearing. http://community.wd.com/t5/WD-Software/WD-Smartware-2-2-0-looses-countless-files-after-update-And/td-p/626545
Now my new add files & folders are NOT showing up.
I called WD about my orginal problem, they were very nice & reponceive. They asked me to remove WD Smartware and reinstall, I did, and that did not fix problem.
So I uninstalled again, this time I went into Windows hidden folder appdata and found any folder that remained after uninstall that was a WDsmartware and I NOTICED several old folders of older versions still on my system, so I removed those also. Then I retarted computer and reinstalled from their web site, WD Smartware program. After a few hours POSSIBLY all my files were there.
Then I created a couple of test folders and after leaving system on all night STILL NO NEW folder.
I have 2 different WIN 7 computers, 1 32-bit, the other 64 bit, both now have this problem. The 32bit I have done nothing except update WD programs when offered updates.
A WD tech called me Friday night to follow up. At that time I was still updating my second install, he said he would call me back Monday morning, I hope he has a fixable solution.