Lots of great advice already. We have found it really helpful to create a shared google doc that we call our "virtual flip-chart" and where note-taking from small groups is clearly structured - tables with clear headings and written out instructions, different background colors for different groups.
If you have an issue where everyone has to work together to make progress on something, you can do a great shift and share if you have small groups (mixed online and in the room, external participants calling in to their buddy's phones) first work on an issue and fill in their chart together, then have an activity where they review and comment on everything everyone else has written.
Having a shared document can be especially useful in low bandwidth situations where spoken conversation alone is frustrating. And when they all write together there can be a different level of shared commitment to the result, than if you just have a large collection of post-its on a wall...
Good luck.
Eva