Selenium server standalone for Internet Explorer

I'm using selenium server standalone to run some selenium tests on Internet explorer but it opens an embedded Internet Explorer which has 2 drowbacks

1. my sites renders differently (every thing is good in IE but not in embedded IE)


2. it does not use internet explorer settings so even while I've turned off script debugging in IE I still get some errors in Embedded IE.

anybody has any idea how can i make selenium standalone server to work with IE, not Embedded IE? I use latest version of both server and driver which is 2.44

Thanks