Application windows remembering original anchor points when moving or resizing

Recently it seems that most of my windows, especially iTunes, Safari, and Finder, seem to retain the anchor points from when they were opened and revert to their original position if a window is resized. I've noticed the following odd behaviors that seem to be related to this problem:
After moving an iTunes or Safari window, right-clicking will open the context menu in a location that corresponds to where the window was originally placed.
After moving a window, a drag-n-drop target remains relative to where the window was. For example, in iTunes, if I open the application and move the window, it becomes impossible to drag a song into a playlist (unless I drag the song to the location where that playlist was when the window originally opened). The same sort of thing happens with Finder windows. In the image below, a screen grab of a Safari window, I right-clicked on the signal strength display pictured on the phone to the left; notice the context menu way off to the right of the Safari window.
Resizing a Safari window makes the window first snap back to the original location, then allows the resize to occur.
Opening/closing a tab in Safari, when the action causes the tab bar to appear or disappear, causes the Safari window to snap back to the original anchored position.
I've noticed this behavior over the past week or so. It was about a week ago that I installed the 10.9.5 update to the OS, but I'm not sure if the problem pre-dated the update or not.
This is driving me insane. Does anyone have any suggestions or, hopefully, a fix?
Thanks.

You can try running the combo update.
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http://www.codeproject.com/Articles/23158/A-Photoshop-like-Cropping-Adorner-for-WPF
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