Overall, not bad. There is going to be a long and detailed bit of criticism here, but you should take that as a sign that things are (relatively) easily fixable. If things were really bad, then I can't give specific suggestions that would make much difference, and if they were horrible I wouldn't even be able to start.
The first thing I have to say is rather subjective: I find the extreme dark grey page background makes the overall page feel kind of claustrophobic. A lighter background, perhaps something with a subtle noise texture, would be as effective at keeping the users' eyes confined to the content area without the forcefulness that the near-black background imparts. (It would also make the shadow effect more prominent and effective, lending a better dimensional sense to the content block.) Note that this was an immediate reaction I got before I even noticed the content, and that it may be cultural as much as anything else; the effect may be completely different for other users.
One thing that I noticed over and over again is "click here" (and variations on that theme). "Click here" is generally regarded as a bad call to action these days. In the very earliest days of the web, users were not accustomed to hyperlinks, and one had to make it very obvious to the reader that clicking would have an effect. The general population is now almost "expert" at using a web browser, and no longer needs to be told to click. For instance, a link around "read the full article" would suffice. Users will understand that as a call to action, so the "click here" is redundant text—in fact, most users would expect to be able to click on the "read the full article" phrase due to the conventions that have built up over the years. Clickable entities (links and buttons) should tell the user what to expect, not what to do.
The same thing goes for the "My Blog" and "My Gallery" blocks on the main page -- the headings should be the links, and you can get rid of the "click to open" text. (In fact, I'd make the whole block clickable if it were me. You can do that by including a link inside the div, with display: block; and sized to the same dimensions as the div itself.)
The margins (whitespace) around your text in the main content area on the individual articles are just a little bit too narrow for comfortable reading (the effect is especially noticeable at the right-hand margin). Bumping that up by 50-100% would not significantly affect the layout of the text, but would dramatically improve readability. The boxes around the article summaries on the main page eliminate the readability problems, so you can leave the CSS for the main page alone.
There are probably going to be people complaining about the contrast level of your sidebar text. Ignore them. The text is perfectly readable as-is, and the reduced contrast means that the text is unobtrusive. It's there and plain to read when the user directs their attention to the sidebar, but it "gets out of the way" when the user is trying to read content in the main central block. There is a good argument, though, for the idea of removing or reducing the "Quick Info" blurb and leaving all of that to your "About Me" page. I'm sure you can find something a little more topical to fill up the space (the News section could probably go there—people sort of expect quick navigation elements in the left-hand column). The stuff on the right can be more "informational" and/or speculative; the "What's New" section fits perfectly, and that would also be a good place to mention ongoing or upcoming activities.
I would, however, spend a significant amount of time on the copy. For instance, you mention that you've moved from Flash-based design to PHP/MySQL-backed HTML, but you haven't really explained why. What are the specific drawbacks to Flash-based designs from your perspective? (As an accessibility and usability wonk, I can think of a number of user-facing deficiencies, and as a developer I can think of many more—not the least of which is that if the original designer abandons the project, all you've got is a SWF to work with, since the FLA probably only exists on his/her computer.) There are a number of spelling and grammar mistakes that detract from the overall professionalism of the site. "Good enough" isn't good enough -- this is the face you are presenting to the world, and as they say, you don't get a second chance to make a first impression. Get help with your content—the contributions from good editors and proofreaders will increase your technical and artistic credibility by leaps and bounds even if copywriting has little or nothing to do with your work. Think of your site as a comprehensive résumé (or CV). It doesn't matter what you can do; if you present it in a less than completely professional manner, any potential hiring manager or person looking for a freelancer will bin your résumé without reading it.
