I ran into trouble building cpuminer in Linux Mint 15 (64 bit) Cinnamon. Everything was fine until I got to configuring CPFLAGS. It wouldnt take and it was annoying because that is the last step. Here is my solution. This can be done whether your are currently stuck on this step or you are about to do the entire build.

sudo apt-get install make automake build-essential git
  sudo apt-get install libcurl4-openssl-dev
  git clone git://github.com/pooler/cpuminer.git
  cd cpuminer
  ./autogen.sh
  ./configure CPPFLAGS=''
  make

Then of course just point your miner at your pool of choice:

./minerd --url http://whatever.poolyouwant.com:Port/ --userpass USERNAME:password