Is there anyway to increase the merge agent batch size after the publication is created?
DownloadGenerationsPerBatch flag when creating a new Publication, however what I'm looking for is a way to modify this flag in a running publication
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The prefered method would be to alter the merge agent profile.
See this link for a detailed explaination on how to do that: http://msdn.microsoft.com/en-us/library/ms152515.aspx
The setting will take effect the next time the merge agent runs.