What are the differences between Autotools, Cmake and Scons?

It's not about GNU coding standards.

The current benefits of autotools — specifically when used with automake — is that they integrate very well with building Linux distribution.

With cmake for example, it's always "was it -DCMAKE_CFLAGS or -DCMAKE_C_FLAGS that I need?" No, it's neither, it's "-DCMAKE_C_FLAGS_RELEASE". Or -DCMAKE_C_FLAGS_DEBUG. It's confusing - in autoconf, it's just ./configure CFLAGS="-O0 -ggdb3" and you have it.

In integration with build infrastructures, scons has the problem that you cannot use make %{?_smp_mflags}, _smp_mflags in this case being an RPM macro that roughly expands to (admin may set it) system power. People put things like -jNCPUS here through their environment. With scons that's not working, so the packages using scons may only get serialed built in distros.