Ok, this has finally got to the point that I'm posting here now that v2 has been out for a while. I thought the issue might get resolved in some updates after v2 was initially released, but it's still happening every time. Basically, when Malwarebytes is done scanning the system and presents you with the option to quarantine items (assuming items were found), as soon as I press the button it always immediately reports that it is finished cleaning. However, you can click on "view detailed log" to get to the scanning history log and see that nothing has actually been cleaned yet. At that point you have to wait an undetermined amount of time and finally Malwarebytes will prompt for a reboot (that is, when it actually finishes cleaning). This is very unintuitive, completely different from how things happened in v1, and could easily lead users to close the application before the cleaning is finished. I've noticed this on well over 30 computers that I've cleaned since v2 came out. Can anyone provide some insight?