1. Is there a code I can put in htaccess(Or any where) that will auto log me in with out having to manually log in every time I access a file in the protected folder?
No, it uses htaccess login protection. This login protection is completely independent from Joomla and Joomla can not influence it.
2. Is it possible that when logging in to joomla with cbsubs that the HTaccess can be set to let me access the protected folders with out logging in to the protected folder also?
No, see reply to 1.
3. However, in general, use of .htaccess files should be avoided when possible. Any configuration that you would consider putting in a .htaccess file, can just as effectively be made in a <Directory> section in your main server configuration file. <<<<is that true? should i do that instead of folder protection?
They're just two different usages. The htaccess protecting is using the authentication dialog module. Each having its own username/password combo file as well. You really only should use this if you intend to directly access file locations, otherwise don't use it and instead just protect the Joomla extension trying to use the files in that location.
krileon
