Your switch to the subscription model means we basically shouldn't care anymore about major versions as features get rolled out continuously. In that sense, patch-based upgrades should be supported for all updates, no matter if you label them a major one (like 2016.2) or a minor one (like 2016.1.3).
I find it very frustrating to download a complete version, index everything again, having duplicate setting folders, etc. This just doesn't make sense in a subscription-based model. Please fix it now!