Closing as a duplicate:
http://tweaker.userecho.com/topic/382920-after-wak...

Unfortunately, I cannot reproduce this bug. All I know is that it's caused by the autoupdate checker, and by looking at the reports you can conclude that the bug occurs only on Windows 7. Perhaps it's a bug of Windows, I don't know.

This is not the same issue as the one the pre-Windows 8.1 Update 1 version.
Please see my reply here:
http://rammichael.com/7-taskbar-tweaker/comment-page-17#comment-3660

v4.5.1

v4.5.1

v4.5.1

v4.5.1

You might want to try the auto-hide taskbar setting.

Read about the Advanced Options Editor here:
http://rammichael.com/7-taskbar-tweaker-v4-4