There is not any standard/default BPS .htaccess code that affects the Googlebot, retrieving a robots.txt file, crawling and indexing a website. If you added additional custom .htaccess code to BPS Custom Code then it is possible that that additional custom .htaccess code could be affecting the Googlebot or other things.
BPS Troubleshooting Steps: http://forum.ait-pro.com/forums/topic/read-me-first-free/#bps-free-general-troubleshooting