The determination of HLA‐B27 (B27) status is important in the diagnosis of ankylosing spondylitis, Reiter's disease, and other arthropathies. Flow cytometric (FCM) typing of B27 is a relatively new method which allows for rapid turnaround time and low cost. However, different leukocyte populations may manifest significant variation in staining intensity with B27 antibodies. Therefore, gating utilizing only light scatter properties of cells may lead to high readings in some B27‐negative samples. Fluorescence gating on CD3+ cells were postulated as a means to eliminate these anomalies. Furthermore, quantitative FCM measurements, as afforded through use of molecules of equivalent soluble fluorochrome (MESF) units, can minimize day‐to‐day and instrument‐to‐instrument variabilities in fluorescence measurements. We compared CD3 gating to light scatter gating and MESF analysis on 123 specimens in a 4‐month period and found: (1) CD3 gating gave the lowest nonspecific B27 antibody binding among B27‐negative subjects; (2) there was no significant difference in MESF values between CD3 gating and light scatter gating of B27‐positive samples; (3) there was a wide range of B27 antibody binding fluorescence intensities among B27‐positive subjects; (4) identification of patients with low B27 expression may require the use of CD3 gating in order to avoid costly confirmation testing; (5) fluorescent standard beads are stable for routine use in a clinical flow cytometry laboratory. © 1996 Wiley‐Liss, Inc.