I've read up a bit on the issues with realignment on Wine 64 and all of the programs that crash because they luckily get away with violating the ABI on Windows. While not crashing is a pretty good thing, forcing stack realignment also affects optimizations in some less obvious ways, inhibiting sibling calls, ret from function bodies, adding a frame pointer, etc. I don't actually have any bright ideas for this atm, but can we at least add a configure option to disable this for those who don't happen to have such programs crashing? Probably only Gentoo users and geeks will care for it.
Sorry about the generated configure script in the patch, I didn't mean to include that.