You are correct that using the Bulk Import Tool assumes that the data is already on one of the Alfresco servers, but that is a hurdle you will have to overcome anyway. Sometimes your fastest option for moving data will be to physically move the drive and connect it to one of your Alfresco servers. However you decided to get the data to the server, the tool supports both copying it into the Alfresco repository, or ingesting it into the database while leaving it in-place on the file system (presumably you would copy it into the alf_data directory before running the tool).
Writing a webscript to which you can post data is sometimes used as a way to allow you to wrap the upload with your own logic. But it won't be as fast as the import tool.
Options such as FTP, CIFS, or SMTP are also often used. They don't give you much out-of-the-box control over what metadata gets extracted, but they are super simple to leverage. You can ingest content at a pretty fast rate using these interfaces, but it won't be as fast as copying the data directly to the server and using the import tool.
Cheers,
Richard
[1] https://addons.alfresco.com/addons/bulk-filesystem-import-tool
[2] http://code.google.com/p/alfresco-bulk-filesystem-import/
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