Status report for Commerce Kickstart 7.x-2.41 reads Not supported
This is a common problem. The best solution, but not necessarily the easiest, is to use drush. You can find the instructions at Installing &amp; upgrading Drupal Commerce under the "Updating your files" section.

tl;dr

Here’s the workflow. Be sure to backup your files and database first!


Move your /sites folder, .htaccess and all non Drupal stuff out of your docroot
Delete your old commerce_kickstart installation. Your docroot folder should be empty.
Run drush dl commerce_kickstart. It will fetch and intall the latest commerce_kickstart version
Move back your /sites folder, .htaccess from above
Run drush updatedb -y