The Commission for Conservation of Antarctic Marine Living Resources (CCAMLR) is utilized to manage krill resources using acoustic data collection and a scientific observer program operating on the fishing boats. However, the acoustic data were contained seriously noise, example of background, spike, and intermittent noise, due to purpose of fish boats. In this study, the noise removal techniques were confirmed the potential of the acoustic data analysis. Acoustic system and frequency used in the survey were commercial echosounder (ES70, SIMRAD) and 200 kHz split beam transducer. Acoustic data were analyzed using Echoview software (Myriax), and general data analysis and new noise removal method was used. Although a variety of noise, most of the noises have been removed using the noise removal processing. We confirmed the possibility of analyzing the acoustic data obtained from fish boats. The results will be useful for analysis of the acoustic data acquired from krill fishing boats.