If you want to speed up your publish time when uploading through, you can publish only your modified files in iWeb. The tutorial below will illustrate exactly what you need to do;
If you use iWeb 09, here is how you can publish only your modified files using.
First, when you make a change to one of your pages in iWeb, you will notice how the page icon turns from blue to red. Red indicates that a change has been made and that this page and all of its files must be republished. When you are finished making changes, make sure that you are publishing to a local folder on your hard drive, and then click on this Publish Site button in the lower left corner of the application. This will only publish the pages and files associated with those red icons.
Next, load the site in iWeb SEO Tool. Click on the Re-Apply Saved tags button. Make any changes you want if any, and then click on the Publish button. On this publish window, ensure that the option for Publish Entire Site is not checked. You can now upload only your changes. This will be the fastest way to publish your site through iWeb SEO Tool. If you were to publish your entire site each time, if would take longer to complete.
Remember, only use this method when you have made changes to your site. If this is your first time publishing with iWeb SEO Tool, you will want to make sure that the entire site is being published. After that initial publish, you can begin using this method.