Abstract—We investigate the performance of maximum likelihood sequence estimation (MLSE) receiver in the presence of the impairments from both the pulse carver-data modulator timing misalignment (TM) and polarization mode dispersion (PMD) in optically amplified return-to-zero (RZ) systems. RZ modulation format is commonly used in long-haul wavelength-division multiplexing transmission systems and the dominating noise source in those systems is amplified spontaneous emission (ASE) noise, which is signal dependent and requires special study when direct detection is employed. In this paper, based on the bit-to-bit error probability estimation using Karhunen-Loeve (KL) expansion and decorrelation of noise components, we use the steepest descent...