First I noticed that there were groups on meta that shouldn't exist
stdClass Object
(
[perm_dbname] => metawiki [perm_group] => flow-bot [perm_permissions] => ["flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board","flow-create-board"] [perm_addgroups] => [] [perm_removegroups] => []
)
.
Notice how there are duplicate permissions.