Intel MKL and ACML have similar APIs but MKL has a richer set of supported functionality including BLAS (and CBLAS)/LAPACK/FFTs/Vector and Statistical Math/Sparse direct and iterative solvers/Sparse BLAS, and so on. Intel MKL is also optimized for both Intel and AMD processors and has an active user forum you can turn to for help or guidance. An independent assessment of the two libraries is posted here: (http://www.advancedclustering.com/company-blog/high-performance-linpack-on-xeon-5500-v-opteron-2400.html)
• Shane Corder, Advanced Clustering, (also carried by HPCWire: Benchmark Challenge: Nehalem Versus Istanbul): “In our recent testing and through real world experience, we have found that the Intel compilers and Intel Math Kernel Library (MKL) usually provide the best performance. Instead of just settling on Intel's toolkit we tried various compilers including: Intel, GNU compilers, and Portland Group. We also tested various linear algebra libraries including: MKL, AMD Core Math Library (ACML), and libGOTO from the University of Texas. All of the testing showed we could achieve the highest performance when using both the Intel Compilers and Intel Math Library--even on the AMD system--so these were used them as the base of our benchmarks.” [Benchmark testing showed 4-core Nehalem X5550 2.66GHz at 74.0GFs vs. Istanbul 2435 2.6GHz at 99.4GFs; Istanbul only 34% faster despite 50% more cores]
Hope this helps.