(Edit: typo)
I'd suggest removing all the 'complicated' layering effect and transparencies. Even hovers over the year links are creating transparencies on the article text. Just leave the article text area 100% opaque, lighten the background to improve contrast. I want to read easily and not off a weave basket.
There is a tad too much variation/combo of the colors used. You have red and grey (which is good) but you have a gazillion shades of it (not good) and you have them alternating roles, ie: red text, red box, grey text, grey box, dark grey text, dark grey box - tighten your color usage. Since your colors usage are everywhere, there's no accent color. (Like I can't tell which color is used to declare text links since all text colors can be text links)
The red is a very strong color - and since author box is in red, it's competing with the article for attention (the article should be the main focus. But it doesn't mean you should make the article box red.)
Move Date under Year (navigation) or move the year next to date - don't make the readers' eyes/brain work, trying to correlate the 2.
Don't show links that aren't clickable and will never have content. ie: Year 1999 etc. Just start from 2005.
Overall the page is super busy with its big range of color shades, layering with transparencies and confusing visual hierarchy/navigation.
The longer I look at the desktop version, the more I like it, but my first reaction was not good. It's too much. (I'm a hacker, not a designer, btw)
It's just far too busy. There's a white button title on top of a semi-transparent gray button which is on top of a darker gray background which is on top of big red letters which are on top of some sort of weird faux-paper diagonal strips. It's like there was an explosion in the layer factory, and it increases the effort needed to actually read the text beyond what I'm willing to put in.
So don't tone it down too much. You can't please everyone, and there's a big design echo-chamber on here. And actually, on second thought, maybe I wouldn't change it at all. Be bold and distinctive. Own it. Design isn't about toning stuff down to the lowest common denominator.
And I love the ease of navigation provided by the top year bar and side day bar.
I think your site is visually striking, but it's a wee bit busy for me. That's all.