Im guessing you working with a stock, 0.5 BAMT installation, correct? If so, its because the CGMiner version that comes with the stock version of BAMT isnt compatible with stratum servers, you need to update CGMiner inside of BAMT in order to connect to stratum servers.
https://bitcointalk.org/index.php?topic=127622.0Use this, worked for me, took all of 5 minutes. Only really need to do the updating CGMiner part, dont have to update Mother (plus I think there is a fix that BAMT put out for this anyway, so just make sure you run the fixer to update BAMT itself).
You might have a problem connecting to the eclipsemc server to download the new version. If you do, download the file in windows, then upload that to like Dropbox and then replace the eclipsemc link with your Dropbox link and let it download from there.