The logo positioning looks good, it would be weird to be in the corner. If you'll notice the navigation menu and page content also have a margin along the sides of the screen to make it visually appealing and easier to read. Only decorative elements extend into this margin for a stylistic effect.
I would recommend using a transparent background, instead of white, so it blends into the header bar.
Thanks Nate, yes my designer will be making a png file for me. Great to know it looks okay. But just for curiosity sake is there a way to change the position of the logo and the nav bar?Like to the middle or so?
No, GoCentral is designed to be simple and easy for those who want to add their content to a pre-designed template.
The site is responsive, so on smaller screens the logo is centered and the navigation is collapsed into an expandable menu. The responsive layouts and breakpoints are already worked out for you.