For anyone having problem with the CommandBar (missing icons, messed up menu) on 1.2 patch, replace these two files with the ones on your "\GameData\Mods\Stargate\DATA\ART\Textures\" directory and the problem will be fixed.
http://www.gamefront.com/files/20062837/FixedCmdBar.rar
For anyone that is interested on what was causing the problem:
The file size of "mt_commandbar.tga" was changed to 32mb in patch 1.2 which is OK for fast graphic cards, but it doesn't work with the slow ones. So I recreated the same file only with the size of 16mb, same size as before patch 1.2. This files includes the changes of 1.2( new images of characters etc). I'm sorry if this is the wrong section to post. I asked around about what to do and when no answer came I just thought to post it here. Thanks for your time. Hope you enjoy it.