Installing ffmpeg under CentOS with all the plugins enabled is no easy task apparently. The only way to get it working properly is to build it from scratch. This process was compiled from lists and forums on the internet
Add DAG Repo to your Yum Repo list if it’s not already added. Run Update to make sure everything is in sync.
rpm -Uhv http://packages.sw.be/rpmforge-release/rpmforge-release-0.5.2-2.el6.rf.x86_64.rpm
yum -y update
Install all tools and libs necessary to build
yum install SDL-devel a52dec a52dec-devel alsa-lib-devel faac faac-devel faad2 faad2-devel
yum install freetype-devel giflib gsm gsm-devel imlib2 imlib2-devel lame lame-devel libICE-devel libSM-devel libX11-devel
yum install libXau-devel libXdmcp-devel libXext-devel libXrandr-devel libXrender-devel libXt-devel
yum install id3tag-devel libogg libvorbis vorbis-tools mesa-libGL-devel mesa-libGLU-devel xorg-x11-proto-devel
yum install xvidcore xvidcore-devel zlib-devel amrnb-devel amrwb-devel
yum install libtheora theora-tools glibc gcc gcc-c++
yum install autoconf automake libtool make ncurses-devel
yum install libdc1394 libdc1394-devel yasm nasm
yum install libvpx*
yum install git-core opencore-amr-devel
Install Codecs
cd /tmp
wget http://www8.mplayerhq.hu/MPlayer/releases/codecs/all-20110131.tar.bz2
bunzip2 all-20110131.tar.bz2; tar xvf all-20110131.tar
mkdir /usr/local/lib/codecs/
mkdir /usr/local/lib64/codecs/
cp all-20110131/* /usr/local/lib/codecs/
cp all-20110131/* /usr/local/lib64/codecs/
chmod -R 755 /usr/local/lib/codecs/
chmod -R 755 /usr/local/lib64/codecs/
cd /tmp
rm -rf all-201110131*
cd /tmp
wget http://downloads.xiph.org/releases/ogg/libogg-1.3.0.tar.gz
tar xzvf libogg-1.3.0.tar.gz
cd libogg-1.3.0
./configure
make
make install
cd /tmp
rm -rf libogg*
cd /tmp
wget http://downloads.xiph.org/releases/vorbis/libvorbis-1.3.3.tar.gz
tar xzvf libvorbis-1.3.3.tar.gz
cd libvorbis-1.3.3
./configure
make
make install
cd /tmp
rm -rf libvorbis*
cd /tmp
wget http://downloads.xiph.org/releases/theora/libtheora-1.1.1.tar.gz
tar xzvf libtheora-1.1.1.tar.gz
cd libtheora-1.1.1
./configure
make
make install
cd /tmp
rm -rf libtheora*
cd /tmp
git clone http://git.chromium.org/webm/libvpx.git
cd libvpx
./configure --enable-shared --extra-cflags=-fPIC
make
make install
cd /tmp
rm -rf libvpx*
cd /tmp
wget http://downloads.sourceforge.net/opencore-amr/vo-aacenc-0.1.2.tar.gz
tar xzvf vo-aacenc-0.1.2.tar.gz
cd vo-aacenc-0.1.2
./configure --enable-shared
make
make install
cd /tmp
rm -rf vo-aaenc*
cd /tmp
git clone git://git.videolan.org/x264.git
cd x264
./configure --enable-shared --extra-cflags=-fPIC --extra-asflags=-D__PIC__
make
make install
cd /tmp
rm -rf x264*
Configure libraries
export LD_LIBRARY_PATH=/usr/local/lib/
echo /usr/local/lib > /etc/ld.so.conf.d/custom-libs.conf
ldconfig
Build ffmpeg
cd /tmp
git clone git://source.ffmpeg.org/ffmpeg.git
cd ffmpeg
git checkout n1.0
./configure --enable-version3 --enable-libopencore-amrnb --enable-libopencore-amrwb --enable-libvpx --enable-libfaac \
--enable-libmp3lame --enable-libtheora --enable-libvorbis --enable-libx264 --enable-libvo-aacenc --enable-libxvid --disable-ffplay \
--enable-shared --enable-gpl --enable-postproc --enable-nonfree --enable-avfilter --enable-pthreads --arch=x86_64 --extra-cflags=-fPIC
make
make install
cd /tmp
rm -rf ffmpeg*
All Done.