In this paper, three methods of sterilisation are compared to determine their usability in nanobubble dispersion sterilisation: filtration, thermal sterilisation and sonication (in two systems: using a sonotrode and sonication bath). Nanobubble dispersions are most commonly generated in non-sterile systems which precludes them from use in most biological research. As a result of this study, filtration was chosen as the best method for nanobubble sterilisation.