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Hi, thank you for your forum post.
Sadly, SQL Data Compare will not help in this situation. You cannot deploy from a single source table to two target tables.
A workaround that may help you, the compare / deploy from the source to the target as single tables and then use the 'Split Table' feature of SQL Prompt to split the single table in the target into two tables:
https://documentation.red-gate.com/display/SP8/Splitting+a+table
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Thanks, Mike