Application data migration.

How can you migrate form data to cloned applications.
Scenario:

I have a master application that has several forms that are connected with the datalookup control creating several one to many relationships.

I need to migrate these form tables to a newly created application that is a .ds import of the master application.

Issue:

When I import the data into the new application it generates new IDs for the records which do not match the foreign-key relationships and the connection is lost between the records.
How is data migration accomplished?

I'm new to maintaining multiple application. This is a big promise of the Creator Marketplace. I'm sure I'm missing something here as I don't know how you could be successful at deploying in the Marketplace without the data migration being addressed.

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