It's actually a problem reported since AL was released -- it involves AL also including the same windows, but they are internally coded differently than the ones in OFB.
If you download and install the latest version of CEP, that should fix you up and the other colors should show up in the catalog (previous CEP versions did not include a fix for this AL/OFB glitch):
http://www.modthesims2.com/download.php?t=92541You may then have to either sell and rebuy or else use the recolor tool on any windows on existing lots which have reverted to default red.