Field-Programmable Gate Array (FPGA) provides the possibility to design new “electromagnetic compatibility (EMC) friendly” control techniques for power electronic converters. Such control techniques use pseudo-random modulators (RanM) to control the converter switches. However, some issues connected with the FPGA-based design of RanM, such as matching the range of fixed-point numbers, might be challenging. The modern programming tools, such as LabVIEW, may facilitate the design process, but there are still fixed-point operations and limitations in arithmetic operations. This paper presents the design insights on the FPGA-based EMC friendly control system for DC/DC converter. Probability density functions (PDF) are used to analyse and improve pseudo-random algorithms. The theoretical algorithms, hardware details and experimental results are presented and discussed in terms of conducted electromagnetic interference emission.