I took some time to skim over some of the sections (races, classes, one of the others - I honestly forget!), plus the original post, and I really like what I see so far.
One thing that I particularly like is that taking a level in a class gives you some extra benefits at first level - but only if that is your first class level. This helps side-step the multi-class abuse that I have seen in too many games (if I take one level of X, and one level of Y, and one level of Z, I'm so uber, then I just level up my main class again).
I also like the different attack stats. It really doesn't make sense that a L4 wizard should be able to fight as effectively with a longsword as a L1 warrior, nor should a warrior be familiar with finger-lasers. It does add more rules and numbers to look after, but in this case, I think it's a good change.
I disagree with an above poster who recommended that every class get some fractional base bonus to all attacks. A wizard is a wizard is a wizard, and isn't going to be spending his time learning about the fine art of swordplay unless he's actually planning on learning the trade of a fighter. A wizard is going to spend his time on what he's good at - casting spells.
Similarly, a fighter knows how to hit people, throw stuff, and use a bow. If a fighter decides to start studying the almighty pew pew, then finger-lasers will be a totally new experience.
I'd actually rather see a little bit less "auxiliary" BCB overall.
Simplifying spell durations is also great. Breaking spells up into 18 levels gives casters something to look forward to every time they level up. Basic classes decorated with lots of feats removes the need for a bazillion ridiculous prestige classes (ugh), allowing for a lot of customization and, for those who enjoy it, lots of interesting choices for optimization.
I still have a lot to look over a lot of the material, but from what I have seen, I really like it. It would be great to see this in a web-based format; if you don't want to deal with bandwidth, domain names, etc., then one of the many free Wiki sites out there might be the way to go.
Thank you so much for sharing your hard work.
Now, convincing my guys to give it a try is a whole other matter...