If you use the same 1024 x 768 size for Android devices that you use for the iPad, the final folio appears letterboxed on the Android device. This solution isn't good long term, because the body text can be too small to read on some devices such as the Galaxy Tab.
If possible, design HTML stacks to be more fluid to account for different screen sizes. For example, avoid setting margins that have a fixed pixel width.
If you target the 1024 x 600 resolution screen size, consider creating a second set of assets that references a CSS designed specifically for 1024 x 600 devices. Therefore, you can take advantage of the entire viewable area. It's also necessary to resize InDesign articles for the 1024 x 600 format.