You can set the following options in the Advanced section of the Save Adobe PDF dialog box:

Subset Embedded Fonts When Percent Of Characters Used Is Less Than

Specifies when to embed the entire font (as opposed to just the characters used in the document) based on how many of the font’s characters are used in the document. For instance, if a font contains 1,000 characters but the document only uses 10 of those characters, you may decide that embedding the font is not worth the extra file size.

Overprint

Specifies how to save overlapping colors that are set to overprint. You can choose to preserve the overprinting or discard the overprinting. If Compatibility (at the top of the dialog box) is set to Acrobat 4 (PDF 1.3), you can also choose to simulate overprinting by flattening the artwork.

Preset

If Compatibility (at the top of the dialog box) is set to Acrobat 4 (PDF 1.3) and the artwork contains transparency, you can specify a preset (or set of options) for flattening transparency. Alternately, click Custom to customize the flattener settings.