Heading back on topic, I find it interesting that the most comprehensive (or at least the most popular) analysis of O'Keefe's video comes from Glenn Beck's website, The Blaze. http://www.theblaze.com/stories/does-raw-video-of-npr-expose-reveal-questionable-editing-tactics/
Just as a quick summary of what they say:
1. Muslim Brotherhood connections
Only reference is that some of the group's members are in observational positions and seeks to downplay any actual connection.
2. Does Ron Schiller react to “Sharia†mission statement with amusement?
Schiller's "reaction" was edited in from another part of the video.
3. How does Schiller describe Republicans?
Says offensive things but stresses they're his opinion. Also applauds Republicans for fiscal conservatism.
4. The “seriously racist†Tea Party
Does say they're racist, but the raw video shows he's actually talking about the opinions of two Republicans, one a former ambassador.
5. Are liberals more educated than conservatives?
Editted to appear more outspoken than he actually is, and his partner directly disagrees.
6. Does NPR need federal funding?
Editted out section saying that federal funding would directly impact local stations and why NPR is still interested in it.
7+8. Audio issue number one and two
Two glitches in the audio, the first seems to be a deliberate cover for some reason; the second is said to be in order to edit out a reporter's name for safety.
Long story short, Schiller wasn't very savvy in his comments but the video of him was edited to make his statements sound much worse or imply he believes much more than he actually says.
And this comes from a conservative site, no less o_O