The flaps are motorized so there is no vac that would cause those to not work. Check the plugs and check to make sure the brackets in the link I showed you are removed.
You can check for vac leaks a few ways. One of the simple ways is to go buy starter fluid and spray it in the area you think there is a leak. If the leak is big enough the RPM will rise. Or you can use soapy water and spray that around to see if you get any bubbles.
RPM surge usually is something you see with vac leaks.