Hi, thanks for your great answer.
Perhaps intel can clarify the use of that tick-box because I found a knowledge base entry (link below) which agrees with your answer and states that the box is greyed-out from Quartus10 onwards. Fair enough it, has had many versions since and they may have a reason to start using the box again but the fact it isn't greyed-out any more suggests to users that it has a function again.
https://www.intel.com/content/www/us/en/programmable/support/support-resources/knowledge-base/solutions/rd05262010_517.html