We agree 100% with the suggestion and are exploring ways to enable this. This represents a significant amount of engineering work hence we don’t have a schedule to share yet.Shane Krueger commented
I can't possibly overstate how important this feature is
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We don’t have a timeline yet but it’s still on our radar.
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We announced differential sync at the SharePoint Conference in May. We’ve already rolled it out to our OneDrive personal users and plan to roll it out to the rest of our users by end of this year. See this blog post for more details: https://techcommunity.microsoft.com/t5/Microsoft-OneDrive-Blog/OneDrive-announcements-SharePoint-Conference-2019/ba-p/616047.
Wanted to provide an update here: this is something we’re planning on doing, but don’t have a timeframe to share yet