I've only ever done them in person - but main challenge is the logistics of it all. More people, more to moderate so you need more time, planning and resources.
As with the 1-1 I'd have some clear objectives about what you want to get out of it. Use the virtual rooms that are now available and try and get some people to help.
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Ensure you have clear objectives.
Recruit the right people for you.
Pilot your focus group before the 'real thing'
Create a happy atmosphere.
Keep control of the session.
Avoid leading questions.
Rope a colleague in to be your 'assistant' moderator.