I'm not sure... it's possible the raid sort is broken again. You might want to use the '/nui raidsort group' command to make sure it is set to sort by raid group...
/nui raidsort {unit|group|class|name}
Selects the sort order used to display unit frames while in a raid. The 'unit' option sorts unit frames by the unit ID from raid1 to raid40. The 'group' option sorts unit frames by the raid group number and the 'class' option sorts by the player class and the name options sorts the raid by the player's name. The default is to sort unit frames by the raid group.
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