Hi,
Before deleting the hikashop_product of your online shop, what you can do is rename it to something else, and then import the table from your local. If all goes well (it should), then you can delete the renamed hikashop_product table.
What I'd like to know is how you get 12 million entries in the hikashop_product table. It means that you must have something inserting loads of products regularily on your website. Probably with a cron task. If you don't use anything requiring the cron, the set a really big value in the option "Minimum delay between two cron tasks" in order to deactivate it and that will probably help avoid the problem again.