The potential of the micro-spinning system as a tool for ranking cotton samples based on some critical yarn quality parameters (tensile properties) has been shown using commercial cotton samples. Achieving comparable results for yarn evenness parameters requires the development of a pre-cleaning protocol to compensate for the deficiencies of the mini-card (when used as the only opening-cleaning process) and simulate the industrial-scale fiber cleaning operations. This pre-cleaning issue is particularly critical when dealing with breeders and biotechnologists samples due to the lack of lint cleaning when small quantities of seed cotton are ginned using laboratory gins. This paper presents a progress report on results of evaluation trials conducted to develop a pre-cleaning protocol for breeders' samples.