Skype For Business Black Rectangles

Greetings, I'm having an issue when presenting a program and overlaying another one on top of it. The top application appear as a black rectangle. In seems that this is a privacy feature with Skype in Windows 8 and onward. Is there a way to disable this feature asI want present all applicaitons? BTW, before presenting a program a pop-up shows stating "windows overlapping an app you're presenting might appear as black rectangles". Thanks.