check the docs on how this works. Kinda thought it would create a new record on a new import, so you may need to delete data you do not want anymore.
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There is no possibility to delete custom objects through import. The only way is to use the API.
Look into this product: Marketo Excel Add-in – Marketo LaunchPoint . I have never tested it, but it seems promising.
It looks like we are going to delete the custom object and create a new one before importing a new batch. However, I think Marketo should add this feature. I will propose it in Ideas.