This seems to be a problem with the "Preview" application from Mac OSX. Viewing both at 100%, Preview renders the points very large while Acrobat does not. I blame Preview. I'm not sure how to fix it for Preview only.
"Preview" vs "Acrobat" http://c.jtth.net/TJnY/Screen%20Shot%202014-01-12%20at%204.14.43%20PM.png
This should be a comment but I can't post those yet.
printedpdf http://c.jtth.net/TJpz/Screen%20Shot%202014-01-12%20at%202.01.16%20PM.png
Using the built in "Save as PDF" dialog from the print menu works fine for me. Having code and knowing your OS X version, whether you're printing to an Adobe PDF module or using the system dialog, and what you're viewing it in would help to narrow down the issues.