Adobe has addressed the problem of SWF rendering issue on Internet Explorer 9.
"The issue where the SWF rendering problem re-appears after exiting full screen mode now seems to occur sporadically, so please report your system information if you still experience this problem with the pre-release build. We are working with Microsoft to determine the cause of the full screen issue," informs Adobe.
"The issue illustrated above (Flash content displaying in the upper left corner) in an update to Flash Player -- Version 10.3.181.16 will now display Flash content correctly. This update is available through Flash Player auto-update notification or at adobe.com," explains ie team.