The ACE-FTS (Atmospheric Chemistry Experiment -Fourier Transform Spectrometer) instrument on board the Canadian satellite SCISAT has been observing the Earth's limb in solar occultation since its launch in 2003. Since February 2004, high resolution (0.02 cm −1) observations in the spectral region of 750-4400 cm −1 have been used to derive volume mixing ratio profiles of over 30 atmospheric trace species and over 20 atmospheric isotopologues. Although the full ACE-FTS level 2 data set is available to users in the general atmospheric community, until now no quality flags have been assigned to the data. This study describes the two-stage procedure for detecting physically unrealistic out-liers within the data set for each retrieved species, which is a fixed procedure across all species. Since the distributions of ACE-FTS data across regions (altitude/latitude/season/local time) tend to be asymmetric and multimodal, the screening process does not make use of the median absolute deviation. It makes use of volume mixing ratio probability density functions , assuming that the data, when sufficiently binned, are at most tri-modal and that these modes can be represented by the superposition of three normal, or log-normal, distributions. Quality flags have been assigned to the data based on retrieval statistical fitting error, the physically unrealis-tic outliers described in this study, and known instrumen-tal/processing errors. The quality flags defined and discussed in this study are now available for all level 2 versions 2.5 and 3.5 data and will be made available as a standard product for future versions.