First let me say that I love your plugin. It is fantastic.
I found a bug in app/functions.php function backwpup_get_backup_files().
The bug caused backups taken to folders to not be displayed when using manage backups. There was a incorrect if statement. The details are below.
Changed this if
// if (substr($file,0,1)=='.' or strtolower(substr($file,-4))=='.zip' or !(strtolower(substr($file,-4))=='.tar' or strtolower(substr($file,-7))=='.tar.gz' or strtolower(substr($file,-4))=='.tar.bz2'))
To this
if (substr($file,0,1)=='.' or !(strtolower(substr($file,-4))=='.zip' or strtolower(substr($file,-4))=='.tar' or strtolower(substr($file,-7))=='.tar.gz' or strtolower(substr($file,-4))=='.tar.bz2'))
Thank you,
John