Well...in it's current form, GA only reports on post click metrics,
save for impressions of ads that got at least one click to your site.
What happens is when you link GA and AdWords and enable autotagging,
when somebody clicks an ad, the ad server appends a "gclid" parameter
to the destination URL. This contains an ID and when encountered by
the GA tracking code on the page, gets sent to Google Analytics and
decoded into campaign, adgroup, source, medium, term, content,
impression variables.
Currently, if there is no click, there is no gcild, there is no
mapping to AdWords data.
I think this is what you are experiencing.
-Nick