Well I'm not going to pretend to know a whole lot about how our minor league system works or anything but I think that to a certain extent that Daver is right: just throwing money at the problem is not going to help, having a lot of good scouts will. Buerhle was drafted when? 10th round? Later? He turned out to be ok. The MLB draft is such a crap shoot, the last guy you picked who you signed for the minimum might wind up being a perennial all star while your top pick who you signed for a record bonus might never even sniff the majors.
On the other hand, I think it is equally wrong to say "Well, we're not going to pick this guy because he's a Boras client and we don't like Boras," or "Well this guy is likely to ask for a lot of money and we don't really feel like paying him that so we'll choose a guy we might be able to get later in the draft but will certainly be able to sign now."