As cardiac murmurs do not generally appear in every area of auscultation, this paper presents an effective approach for cardiac murmur detection based on stochastic analysis of acoustic features derived from Empirical Mode Decomposition (EMD) and Hilbert-Huang Transform (HHT) of phonocardiographic (PCG) signals made up by the 4-Standard Auscultation Areas (SAA). The 4-SAA PCG database belongs to the National University of Colombia. Mel-Frequency Cepstral Coefficients (MFCC) and statistical moments of HHT were estimated over EMD components. An ergodic HMM was applied on the feature space, randomly initialized and trained by expectation maximization with a convergence at 10e-6 and a maximum iteration number of 1000. Global classification results for 4-SAA were around 98.7% with satisfactory sensitivity and specificity results, using a 30-fold cross-validation procedure (70/30 split). The representation capability of the EMD technique applied to 4-SAA PCG signals and stochastic analysis of acoustic features offered a high performance to detect cardiac murmurs.