This is using version 3.3.2. Steps to reproduce:
1. Collapse the Yoast SEO meta box on a post edit screen
2. Reload the edit screen so the SEO meta box defaults to collapsed
3. There will be about 300 pixels of whitespace at the bottom of the edit screen, after "Thank you for creating with WordPress!" and the end of the page.
This is due to an absolutely positioned div at the bottom of the screen that is set to 'visibility: hidden' instead of 'display: none':
<div><span style="width: auto; height: auto; position: absolute; visibility: hidden; white-space: nowrap">Page Title Here</span><span style="width: 0px; height: auto; position: absolute; visibility: hidden; ">Please provide a meta description by editing the snippet below.</span></div>