While it's quite popular to bash autotools, how about instead working towards a successor? One that's as easy for the end user to use as autotools, but with less technical debit. It's a hard problem, as evidenced by the inherent complexity in autotools, but there are a lot of smart folks who could apply their effort towards that goal.
there _is_ a huge amount of smart folks who worked or works on build systems. Sadly, it seems everyone is 80% better than the others in something and 20% lacking in something else. For example, the SCons wiki has some interesting comparisons. https://bitbucket.org/scons/scons/wiki/SconsVsOtherBuildTool...
Ubiquity is important for a build tool.